From 756741427d885b69cd072c609f29c0a0d56f4af4 Mon Sep 17 00:00:00 2001 From: "github-actions[bot]" <41898282+github-actions[bot]@users.noreply.github.com> Date: Mon, 25 Mar 2024 14:47:36 +0200 Subject: [PATCH] Update SSSOM Extended Prefix Map (#507) 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 | 83 +++++++++++++++++++++++++++++++++++++++--- 1 file changed, 78 insertions(+), 5 deletions(-) diff --git a/src/sssom/obo.epm.json b/src/sssom/obo.epm.json index 553682d8..e26bf5d2 100644 --- a/src/sssom/obo.epm.json +++ b/src/sssom/obo.epm.json @@ -563,13 +563,21 @@ "uri_prefix_synonyms": [ "http://bioregistry.io/CHEMINF:", "http://bioregistry.io/cheminf:", + "http://identifiers.org/CHEMINF/", + "http://identifiers.org/CHEMINF:", + "http://identifiers.org/cheminf/CHEMINF:", "http://semanticscience.org/resource/CHEMINF_", "http://www.ebi.ac.uk/ols/ontologies/cheminf/terms?iri=http://purl.obolibrary.org/obo/CHEMINF_", + "http://www.ebi.ac.uk/ols4/ontologies/cheminf/classes?obo_id=CHEMINF:", "https://bioregistry.io/CHEMINF:", "https://bioregistry.io/cheminf:", + "https://identifiers.org/CHEMINF/", + "https://identifiers.org/CHEMINF:", + "https://identifiers.org/cheminf/CHEMINF:", "https://purl.obolibrary.org/obo/CHEMINF_", "https://semanticscience.org/resource/CHEMINF_", - "https://www.ebi.ac.uk/ols/ontologies/cheminf/terms?iri=http://purl.obolibrary.org/obo/CHEMINF_" + "https://www.ebi.ac.uk/ols/ontologies/cheminf/terms?iri=http://purl.obolibrary.org/obo/CHEMINF_", + "https://www.ebi.ac.uk/ols4/ontologies/cheminf/classes?obo_id=CHEMINF:" ] }, { @@ -2071,6 +2079,7 @@ ] }, { + "pattern": "^\\d{7}$", "prefix": "EV", "prefix_synonyms": [ "ev" @@ -2474,6 +2483,7 @@ ] }, { + "pattern": "^\\d{7}$", "prefix": "GALLONT", "prefix_synonyms": [ "gallont" @@ -3333,6 +3343,7 @@ ] }, { + "pattern": "^\\d{7}$", "prefix": "MAO", "prefix_synonyms": [ "mao" @@ -3419,6 +3430,7 @@ ] }, { + "pattern": "^\\d{7}$", "prefix": "MCRO", "prefix_synonyms": [ "mcro" @@ -3427,9 +3439,17 @@ "uri_prefix_synonyms": [ "http://bioregistry.io/MCRO:", "http://bioregistry.io/mcro:", + "http://identifiers.org/MCRO/", + "http://identifiers.org/MCRO:", + "http://identifiers.org/mcro/MCRO:", + "http://www.ebi.ac.uk/ols4/ontologies/mcro/classes?obo_id=MCRO:", "https://bioregistry.io/MCRO:", "https://bioregistry.io/mcro:", - "https://purl.obolibrary.org/obo/MCRO_" + "https://identifiers.org/MCRO/", + "https://identifiers.org/MCRO:", + "https://identifiers.org/mcro/MCRO:", + "https://purl.obolibrary.org/obo/MCRO_", + "https://www.ebi.ac.uk/ols4/ontologies/mcro/classes?obo_id=MCRO:" ] }, { @@ -3469,6 +3489,7 @@ ] }, { + "pattern": "^\\d{7}$", "prefix": "MFO", "prefix_synonyms": [ "mfo" @@ -4208,6 +4229,7 @@ ] }, { + "pattern": "^\\d{7}$", "prefix": "NGBO", "prefix_synonyms": [ "ngbo" @@ -4377,11 +4399,19 @@ "uri_prefix_synonyms": [ "http://bioregistry.io/OBCS:", "http://bioregistry.io/obcs:", + "http://identifiers.org/OBCS/", + "http://identifiers.org/OBCS:", + "http://identifiers.org/obcs/OBCS:", "http://www.ebi.ac.uk/ols/ontologies/obcs/terms?iri=http://purl.obolibrary.org/obo/OBCS_", + "http://www.ebi.ac.uk/ols4/ontologies/obcs/classes?obo_id=OBCS:", "https://bioregistry.io/OBCS:", "https://bioregistry.io/obcs:", + "https://identifiers.org/OBCS/", + "https://identifiers.org/OBCS:", + "https://identifiers.org/obcs/OBCS:", "https://purl.obolibrary.org/obo/OBCS_", - "https://www.ebi.ac.uk/ols/ontologies/obcs/terms?iri=http://purl.obolibrary.org/obo/OBCS_" + "https://www.ebi.ac.uk/ols/ontologies/obcs/terms?iri=http://purl.obolibrary.org/obo/OBCS_", + "https://www.ebi.ac.uk/ols4/ontologies/obcs/classes?obo_id=OBCS:" ] }, { @@ -4429,6 +4459,7 @@ ] }, { + "pattern": "^\\d+$", "prefix": "OCCO", "prefix_synonyms": [ "occo" @@ -4757,11 +4788,19 @@ "uri_prefix_synonyms": [ "http://bioregistry.io/OPL:", "http://bioregistry.io/opl:", + "http://identifiers.org/OPL/", + "http://identifiers.org/OPL:", + "http://identifiers.org/opl/OPL:", "http://www.ebi.ac.uk/ols/ontologies/opl/terms?iri=http://purl.obolibrary.org/obo/OPL_", + "http://www.ebi.ac.uk/ols4/ontologies/opl/classes?obo_id=OPL:", "https://bioregistry.io/OPL:", "https://bioregistry.io/opl:", + "https://identifiers.org/OPL/", + "https://identifiers.org/OPL:", + "https://identifiers.org/opl/OPL:", "https://purl.obolibrary.org/obo/OPL_", - "https://www.ebi.ac.uk/ols/ontologies/opl/terms?iri=http://purl.obolibrary.org/obo/OPL_" + "https://www.ebi.ac.uk/ols/ontologies/opl/terms?iri=http://purl.obolibrary.org/obo/OPL_", + "https://www.ebi.ac.uk/ols4/ontologies/opl/classes?obo_id=OPL:" ] }, { @@ -5933,11 +5972,19 @@ "uri_prefix_synonyms": [ "http://bioregistry.io/STATO:", "http://bioregistry.io/stato:", + "http://identifiers.org/STATO/", + "http://identifiers.org/STATO:", + "http://identifiers.org/stato/STATO:", "http://www.ebi.ac.uk/ols/ontologies/stato/terms?iri=http://purl.obolibrary.org/obo/STATO_", + "http://www.ebi.ac.uk/ols4/ontologies/stato/classes?obo_id=STATO:", "https://bioregistry.io/STATO:", "https://bioregistry.io/stato:", + "https://identifiers.org/STATO/", + "https://identifiers.org/STATO:", + "https://identifiers.org/stato/STATO:", "https://purl.obolibrary.org/obo/STATO_", - "https://www.ebi.ac.uk/ols/ontologies/stato/terms?iri=http://purl.obolibrary.org/obo/STATO_" + "https://www.ebi.ac.uk/ols/ontologies/stato/terms?iri=http://purl.obolibrary.org/obo/STATO_", + "https://www.ebi.ac.uk/ols4/ontologies/stato/classes?obo_id=STATO:" ] }, { @@ -6398,6 +6445,7 @@ ] }, { + "pattern": "^\\d{7}$", "prefix": "VSAO", "prefix_synonyms": [ "VSAO_RETIRED", @@ -6663,6 +6711,7 @@ ] }, { + "pattern": "^\\d{7}$", "prefix": "ZEA", "prefix_synonyms": [ "zea" @@ -20025,6 +20074,16 @@ "https://open-services.net/ns/core#" ] }, + { + "pattern": "^\\d+$", + "prefix": "osti.article", + "uri_prefix": "https://www.osti.gov/biblio/", + "uri_prefix_synonyms": [ + "http://bioregistry.io/osti.article:", + "http://www.osti.gov/biblio/", + "https://bioregistry.io/osti.article:" + ] + }, { "pattern": "^A[A-Z]+\\d+$", "prefix": "otl", @@ -23875,6 +23934,20 @@ "https://www.w3.org/2003/11/swrl#" ] }, + { + "pattern": "^[0-9]*\\.*[0-9]*$", + "prefix": "synapse", + "uri_prefix": "https://repo-prod.prod.sagebase.org/ga4gh/drs/v1/objects/syn", + "uri_prefix_synonyms": [ + "http://bioregistry.io/synapse:", + "http://identifiers.org/synapse/", + "http://identifiers.org/synapse:", + "http://repo-prod.prod.sagebase.org/ga4gh/drs/v1/objects/syn", + "https://bioregistry.io/synapse:", + "https://identifiers.org/synapse/", + "https://identifiers.org/synapse:" + ] + }, { "pattern": "^T3D\\d+$", "prefix": "t3db",