update for latest camlhmp changes

rpetit3 · Aug 15, 2024 · e01a831 · e01a831
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diff --git a/CHANGELOG b/CHANGELOG
@@ -1,5 +1,9 @@
 # Changelog
 
+## v1.1.0 rpetit3/sccmec "USA300" 2024/08/15
+
+- Update for latest camlhmp changes
+
 ## v1.0.0 rpetit3/sccmec "MRSA" 2024/04/30
 
 - Initial release
diff --git a/README.md b/README.md
@@ -45,7 +45,7 @@ conda activate sccmec
 sccmec --help
 ```
 
-__Note:__ `sccmec` is just a wrapper around [camlhmp-blast](https://github.com/rpetit3/camlhmp?tab=readme-ov-file#camlhmp-blast)
+__Note:__ `sccmec` is just a wrapper around [camlhmp](https://github.com/rpetit3/camlhmp)
 with the defaults for `--yaml` and `--targets` already set. Please don't let this confuse you
 when you see all the camels!
 
@@ -54,7 +54,7 @@ when you see all the camels!
 ```bash
  Usage: camlhmp-blast [OPTIONS]                                                                                                  
 
- 🐪 camlhmp-blast 🐪 - Classify assemblies with a camlhmp schema using BLAST                                                     
+ 🐪 camlhmp-blast-targets 🐪 - Classify assemblies with a camlhmp schema using BLAST                                                     
 
 ╭─ Options ───────────────────────────────────────────────────────────────────────────────────╮
 │    --version       -V           Show the version and exit.                                  │

diff --git a/bin/sccmec b/bin/sccmec
@@ -1,5 +1,4 @@
 #!/usr/bin/env bash
-version="1.0.0"
 sccmec_dir=$(dirname $0)
 
 CAML_YAML="${sccmec_dir}/../data/sccmec.yaml" \

diff --git a/bin/sccmec-bioconda b/bin/sccmec-bioconda
@@ -1,5 +1,4 @@
 #!/usr/bin/env bash
-version="1.0.0"
 sccmec_dir=$(dirname $0)
 
 CAML_YAML="${sccmec_dir}/../share/sccmec/sccmec.yaml" \

diff --git a/data/sccmec-regions.yaml b/data/sccmec-regions.yaml
@@ -5,7 +5,7 @@ metadata:
   id: "sccmec_regions"                                            # id of the schema
   name: "SCCmec Typing"                                           # name of the schema
   description: "A schema for SCCmec typing using full cassettes"  # description of the schema
-  version: "1.0.0"                                                # version of the schema
+  version: "1.1.0"                                                # version of the schema
   curators:                                                       # A list of curators of the schema
     - "Robert A. Petit III"
 

diff --git a/data/sccmec.yaml b/data/sccmec.yaml
@@ -5,7 +5,7 @@ metadata:
   id: "sccmec"                                       # id of the schema
   name: "SCCmec Typing"                              # name of the schema
   description: "A schema for SCCmec typing"          # description of the schema
-  version: "1.0.0"                                   # version of the schema
+  version: "1.1.0"                                   # version of the schema
   curators:                                          # A list of curators of the schema
     - "Robert Petit"