From 01965f4f0018ef45bd3ececc0f9015fdeec4a849 Mon Sep 17 00:00:00 2001 From: "github-actions[bot]" <41898282+github-actions[bot]@users.noreply.github.com> Date: Mon, 8 Apr 2024 15:19:25 +0300 Subject: [PATCH] Update SSSOM Extended Prefix Map (#518) This pull request updates sssom extended prefix map (epm). Make sure you run make tests manually. Co-authored-by: matentzn --- src/sssom/obo.epm.json | 126 +++++++++++++++++++++++++++++++++++++++++ 1 file changed, 126 insertions(+) diff --git a/src/sssom/obo.epm.json b/src/sssom/obo.epm.json index 0137e9bf..dba963de 100644 --- a/src/sssom/obo.epm.json +++ b/src/sssom/obo.epm.json @@ -5990,6 +5990,20 @@ "https://n2t.net/swisslipid:" ] }, + { + "prefix": "SLSO", + "prefix_synonyms": [ + "slso" + ], + "uri_prefix": "http://purl.obolibrary.org/obo/SLSO_", + "uri_prefix_synonyms": [ + "http://bioregistry.io/SLSO:", + "http://bioregistry.io/slso:", + "https://bioregistry.io/SLSO:", + "https://bioregistry.io/slso:", + "https://purl.obolibrary.org/obo/SLSO_" + ] + }, { "pattern": "^\\d{7}$", "prefix": "SO", @@ -9588,13 +9602,18 @@ { "pattern": "^[0-9]+$", "prefix": "civic.aid", + "prefix_synonyms": [ + "civic.assertion" + ], "uri_prefix": "https://civicdb.org/links/assertions/", "uri_prefix_synonyms": [ "http://bioregistry.io/civic.aid:", + "http://bioregistry.io/civic.assertion:", "http://civicdb.org/links/assertions/", "http://identifiers.org/civic.aid/", "http://identifiers.org/civic.aid:", "https://bioregistry.io/civic.aid:", + "https://bioregistry.io/civic.assertion:", "https://identifiers.org/civic.aid/", "https://identifiers.org/civic.aid:" ] @@ -9602,13 +9621,18 @@ { "pattern": "^[0-9]+$", "prefix": "civic.did", + "prefix_synonyms": [ + "civic.disease" + ], "uri_prefix": "https://civicdb.org/links/diseases/", "uri_prefix_synonyms": [ "http://bioregistry.io/civic.did:", + "http://bioregistry.io/civic.disease:", "http://civicdb.org/links/diseases/", "http://identifiers.org/civic.did/", "http://identifiers.org/civic.did:", "https://bioregistry.io/civic.did:", + "https://bioregistry.io/civic.disease:", "https://identifiers.org/civic.did/", "https://identifiers.org/civic.did:" ] @@ -9616,13 +9640,18 @@ { "pattern": "^[0-9]+$", "prefix": "civic.eid", + "prefix_synonyms": [ + "civic.evidence" + ], "uri_prefix": "https://civicdb.org/links/evidence/", "uri_prefix_synonyms": [ "http://bioregistry.io/civic.eid:", + "http://bioregistry.io/civic.evidence:", "http://civicdb.org/links/evidence/", "http://identifiers.org/civic.eid/", "http://identifiers.org/civic.eid:", "https://bioregistry.io/civic.eid:", + "https://bioregistry.io/civic.evidence:", "https://identifiers.org/civic.eid/", "https://identifiers.org/civic.eid:" ] @@ -9630,12 +9659,17 @@ { "pattern": "^[0-9]+$", "prefix": "civic.gid", + "prefix_synonyms": [ + "civic.gene" + ], "uri_prefix": "https://civicdb.org/links/gene/", "uri_prefix_synonyms": [ + "http://bioregistry.io/civic.gene:", "http://bioregistry.io/civic.gid:", "http://civicdb.org/links/gene/", "http://identifiers.org/civic.gid/", "http://identifiers.org/civic.gid:", + "https://bioregistry.io/civic.gene:", "https://bioregistry.io/civic.gid:", "https://identifiers.org/civic.gid/", "https://identifiers.org/civic.gid:" @@ -9644,12 +9678,17 @@ { "pattern": "^[0-9]+$", "prefix": "civic.mpid", + "prefix_synonyms": [ + "civic.molecularprofile" + ], "uri_prefix": "https://civicdb.org/links/molecular_profile/", "uri_prefix_synonyms": [ + "http://bioregistry.io/civic.molecularprofile:", "http://bioregistry.io/civic.mpid:", "http://civicdb.org/links/molecular_profile/", "http://identifiers.org/civic.mpid/", "http://identifiers.org/civic.mpid:", + "https://bioregistry.io/civic.molecularprofile:", "https://bioregistry.io/civic.mpid:", "https://identifiers.org/civic.mpid/", "https://identifiers.org/civic.mpid:" @@ -9658,13 +9697,18 @@ { "pattern": "^[0-9]+$", "prefix": "civic.sid", + "prefix_synonyms": [ + "civic.source" + ], "uri_prefix": "https://civicdb.org/links/sources/", "uri_prefix_synonyms": [ "http://bioregistry.io/civic.sid:", + "http://bioregistry.io/civic.source:", "http://civicdb.org/links/sources/", "http://identifiers.org/civic.sid/", "http://identifiers.org/civic.sid:", "https://bioregistry.io/civic.sid:", + "https://bioregistry.io/civic.source:", "https://identifiers.org/civic.sid/", "https://identifiers.org/civic.sid:" ] @@ -9672,12 +9716,17 @@ { "pattern": "^[0-9]+$", "prefix": "civic.tid", + "prefix_synonyms": [ + "civic.therapy" + ], "uri_prefix": "https://civicdb.org/links/drugs/", "uri_prefix_synonyms": [ + "http://bioregistry.io/civic.therapy:", "http://bioregistry.io/civic.tid:", "http://civicdb.org/links/drugs/", "http://identifiers.org/civic.tid/", "http://identifiers.org/civic.tid:", + "https://bioregistry.io/civic.therapy:", "https://bioregistry.io/civic.tid:", "https://identifiers.org/civic.tid/", "https://identifiers.org/civic.tid:" @@ -9686,12 +9735,17 @@ { "pattern": "^[0-9]+$", "prefix": "civic.vgid", + "prefix_synonyms": [ + "civic.variantgroup" + ], "uri_prefix": "https://civicdb.org/links/variant_group/", "uri_prefix_synonyms": [ + "http://bioregistry.io/civic.variantgroup:", "http://bioregistry.io/civic.vgid:", "http://civicdb.org/links/variant_group/", "http://identifiers.org/civic.vgid/", "http://identifiers.org/civic.vgid:", + "https://bioregistry.io/civic.variantgroup:", "https://bioregistry.io/civic.vgid:", "https://identifiers.org/civic.vgid/", "https://identifiers.org/civic.vgid:" @@ -9700,13 +9754,18 @@ { "pattern": "^[0-9]+$", "prefix": "civic.vid", + "prefix_synonyms": [ + "civic.variant" + ], "uri_prefix": "https://civicdb.org/links/variant/", "uri_prefix_synonyms": [ + "http://bioregistry.io/civic.variant:", "http://bioregistry.io/civic.vid:", "http://civic.genome.wustl.edu/links/variants/", "http://civicdb.org/links/variant/", "http://identifiers.org/civic.vid/", "http://identifiers.org/civic.vid:", + "https://bioregistry.io/civic.variant:", "https://bioregistry.io/civic.vid:", "https://civic.genome.wustl.edu/links/variants/", "https://identifiers.org/civic.vid/", @@ -10286,6 +10345,26 @@ "https://bioregistry.io/cpt:" ] }, + { + "prefix": "cran", + "uri_prefix": "https://cran.r-project.org/web/packages/", + "uri_prefix_synonyms": [ + "http://CRAN.R-project.org/package=", + "http://bioregistry.io/cran:", + "http://cran.r-project.org/web/packages/", + "https://CRAN.R-project.org/package=", + "https://bioregistry.io/cran:" + ] + }, + { + "prefix": "crates", + "uri_prefix": "https://crates.io/crates/", + "uri_prefix_synonyms": [ + "http://bioregistry.io/crates:", + "http://crates.io/crates/", + "https://bioregistry.io/crates:" + ] + }, { "pattern": "^[0-9]+$", "prefix": "crisprdb", @@ -10455,6 +10534,16 @@ "https://bioregistry.io/ctis:" ] }, + { + "pattern": "^CTRI/\\d{4}/\\d{2}/\\d+$", + "prefix": "ctri", + "uri_prefix": "https://trialsearch.who.int/Trial2.aspx?TrialID=", + "uri_prefix_synonyms": [ + "http://bioregistry.io/ctri:", + "http://trialsearch.who.int/Trial2.aspx?TrialID=", + "https://bioregistry.io/ctri:" + ] + }, { "pattern": "^[A-Za-z_0-9]+$", "prefix": "cubedb", @@ -19338,6 +19427,15 @@ "https://bioregistry.io/novus:" ] }, + { + "prefix": "npm", + "uri_prefix": "https://www.npmjs.com/package/", + "uri_prefix_synonyms": [ + "http://bioregistry.io/npm:", + "http://www.npmjs.com/package/", + "https://bioregistry.io/npm:" + ] + }, { "pattern": "^\\d+$", "prefix": "npo", @@ -19401,6 +19499,16 @@ "https://bioregistry.io/nxr:" ] }, + { + "pattern": "^[1-9]\\d{3,7}$", + "prefix": "nztcs", + "uri_prefix": "https://nztcs.org.nz/nztcs-species/", + "uri_prefix_synonyms": [ + "http://bioregistry.io/nztcs:", + "http://nztcs.org.nz/nztcs-species/", + "https://bioregistry.io/nztcs:" + ] + }, { "prefix": "oa", "uri_prefix": "http://www.w3.org/ns/oa#", @@ -20167,6 +20275,15 @@ "https://n2t.net/p3db.site:" ] }, + { + "prefix": "packagist", + "uri_prefix": "https://packagist.org/packages/", + "uri_prefix_synonyms": [ + "http://bioregistry.io/packagist:", + "http://packagist.org/packages/", + "https://bioregistry.io/packagist:" + ] + }, { "pattern": "^\\d+$", "prefix": "paleodb", @@ -22612,6 +22729,15 @@ "https://scicrunch.org/resolver/RRID:RRRC_" ] }, + { + "prefix": "rubygems", + "uri_prefix": "https://rubygems.org/gems/", + "uri_prefix_synonyms": [ + "http://bioregistry.io/rubygems:", + "http://rubygems.org/gems/", + "https://bioregistry.io/rubygems:" + ] + }, { "pattern": "^[0-9a-z]{24,24}$", "prefix": "runbiosimulations",