-
Notifications
You must be signed in to change notification settings - Fork 26
Proposed API changes 2014 08
Cody Hinchliff edited this page Aug 26, 2014
·
13 revisions
taxomachine:
- tnrs/contexts
- tnrs/infercontext
- tnrs/autocompletequery
- tnrs/contextquery
- ott/subtree
- ott/info
- ott/deprecatedtaxa
- ott/taxoninfo
- ott/flags
treemachine:
- custom/synthjsonsas
- custom/taxjsonsas
- graphoflife/mrca
- graphoflife/subtree
- graphoflife/drafttreeinfo
- graphoflife/ottversion
- graphoflife/sourcetree
- graphoflife/drafttree
- graphoflife/taxoninfo
- graphoflife/draftchildren
- import/testnexson (maybe)
oti:
- indexing/addnexsons
- indexing/removenexsons
- queries/allstudies
- queries/studies
- queries/trees
- queries/nodes
- queries/properties
taxomachine:
- TNRS -> tnrs
- taxomachine/vN/tnrs/contexts
- getContextForNames -> infercontext
- autocompleteQuery -> autocompletequery
- contextQuery -> contextquery
- getTaxonomyVersion -> (remove)
- has been replaced by info service in ott plugin
- OTTServices -> ott
- subtree -> subtree
- moved from getJSONs
- may be useful, change input format to accept a list of ott ids for a pruned subtree or a single ott id for a clade subtree
- getTaxonomyInfo -> info
- getDeprecatedTaxa -> deprecatedtaxa
- getTaxonInfo -> taxoninfo
- getFlaggedTaxonCount -> flags
- subtree -> subtree
- getJSONs -> (remove)
- getNodeIdJSONFromName -> (remove)
- getConflictTaxJsonAltRel -> (remove)
- subtree -> (move to ott plugin)
treemachine:
- getSASJsons -> custom
- getSynthJson -> synthjsonsas
- getTaxonJson -> taxjsonsas
- PhylografterUpdater -> (remove?)
- updateGraphFromPhylografter -> (remove?)
- I'm pretty sure this is obsolete, need to verify with stephen. if not, move to import plugin
- updateGraphFromPhylografter -> (remove?)
- GoLS -> graphoflife
- getSourceTreeIds -> (remove)
- getDraftTreeMRCAForNodes -> (remove?)
- I think Joseph has replaced this with getMRCA
- getTaxonomyMRCAForNodes -> (remove?)
- Has this also been superseded by getMRCA?
- getMRCA -> mrca
- getDraftSubtreeForNodes -> subtree
- getStudyIngestMessagesForNexSON -> (either remove or move to import plugin)
- getDraftTreeID -> drafttreeinfo
- add the info from getSynthesisSources
- getTaxonomyVersion -> ottversion
- getSynthesisSourceList -> (remove)
- add this functionality to drafttreeinfo
- synthesizeSubtree -> (remove)
- this initiates a synthesis procedure. not something we want exposed right now
- getSourceTree -> sourcetree
- getSyntheticTree -> drafttree
- we may want to combine this with the getsubtree method...
- getDraftTreeForottId -> (remove?)
- combine this with the subtree method?
- getDraftTreeForNodeIdD -> (remove)
- combine this with the subtree method
- getNodeIdForottId -> taxoninfo
- getDraftTreeChildNodesForNodeID -> draftchildren
- (new, maybe) -> import
- getStudyIngestMessagesForNexSON -> testnexson (potentially moved from GoLS)
oti:
- ConfigurationServices -> (remove - these are unused and not for public use anyway)
- install OTT -> (remove)
- connectAllTreesToOTT -> (remove)
- IndexServices -> indexing (NOTE: these should not be part of the public api...)
- indexNexsons -> addnexsons
- unindexNexsons -> removenexsons
- NexsonServices -> (remove; empty)
- QueryServices -> queries
- findAllStudies -> allstudies
- singlePropertySearchForStudies -> studies
- singlePropertySearchForTrees -> trees
- singlePropertySearcgForTreeNodes -> nodes
- getSearchablePropertiesStudies -> properties
- getSearchablePropertiesForTrees -> (remove)
- add info to properties
- getSearchablePropertiesForTreeNodes -> (remove)
- add info to properties