Merge pull request #145 from information-artifact-ontology/r20230823

Update release files for 23. August 2023
information-artifact-ontology · Aug 23, 2023 · 1394f93 · 1394f93
2 parents 96e70af + ce62bb0
commit 1394f93
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Showing 6 changed files with 92 additions and 12 deletions.
diff --git a/omo-full.json b/omo-full.json
@@ -121,9 +121,9 @@
         "val" : "https://creativecommons.org/publicdomain/zero/1.0/"
       }, {
         "pred" : "http://www.w3.org/2002/07/owl#versionInfo",
-        "val" : "2023-07-28"
+        "val" : "2023-08-23"
       } ],
-      "version" : "http://purl.obolibrary.org/obo/omo/releases/2023-07-28/omo-full.json"
+      "version" : "http://purl.obolibrary.org/obo/omo/releases/2023-08-23/omo-full.json"
     },
     "nodes" : [ {
       "id" : "http://purl.obolibrary.org/obo/IAO_0000002",
@@ -470,6 +470,28 @@
           "val" : "https://orcid.org/0000-0001-5208-3432"
         } ]
       }
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/OMO_0001002",
+      "lbl" : "domain entity does not exist",
+      "type" : "INDIVIDUAL",
+      "meta" : {
+        "definition" : {
+          "val" : "The term was added to the ontology on the assumption it was a valid domain entity, but it turns out the entity does not exist in reality."
+        },
+        "basicPropertyValues" : [ {
+          "pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
+          "val" : "This obsolesence reason should be used conservatively. For example: Obsoleting class that describes a breed of cow based on a record in an existing database, that was later retracted as faulty (breed does not exist). Do not use this term to obsolete a historic concept (that was once valid, but not anymore). "
+        }, {
+          "pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
+          "val" : "http://orcid.org/0000-0002-4142-7153"
+        }, {
+          "pred" : "http://purl.obolibrary.org/obo/IAO_0000233",
+          "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/136"
+        }, {
+          "pred" : "http://purl.obolibrary.org/obo/IAO_0000234",
+          "val" : "https://orcid.org/0000-0002-4142-7153"
+        } ]
+      }
     }, {
       "id" : "http://purl.obolibrary.org/obo/IAO_0000027",
       "lbl" : "data item",
@@ -2058,6 +2080,10 @@
       "sub" : "http://purl.obolibrary.org/obo/OMO_0001000",
       "pred" : "type",
       "obj" : "http://purl.obolibrary.org/obo/IAO_0000225"
+    }, {
+      "sub" : "http://purl.obolibrary.org/obo/OMO_0001002",
+      "pred" : "type",
+      "obj" : "http://purl.obolibrary.org/obo/IAO_0000225"
     } ]
   } ]
 }
diff --git a/omo-full.obo b/omo-full.obo
@@ -1,5 +1,5 @@
 format-version: 1.2
-data-version: omo/releases/2023-07-28/omo-full.owl
+data-version: omo/releases/2023-08-23/omo-full.owl
 ontology: omo/omo-full
 property_value: defaultLanguage "en" xsd:string
 property_value: http://purl.org/dc/elements/1.1/contributor "Adam Goldstein" xsd:string
@@ -40,7 +40,7 @@ property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun (Oliver) He
 property_value: http://purl.org/dc/elements/1.1/description "An ontology specifies terms that are used to annotate ontology terms for all OBO ontologies. The ontology was developed as part of Information Artifact Ontology (IAO)." xsd:string
 property_value: http://purl.org/dc/elements/1.1/title "OBO Metadata Ontology" xsd:string
 property_value: http://purl.org/dc/terms/license https://creativecommons.org/publicdomain/zero/1.0/
-property_value: owl:versionInfo "2023-07-28" xsd:string
+property_value: owl:versionInfo "2023-08-23" xsd:string
 
 [Term]
 id: IAO:0000027

diff --git a/omo-full.owl b/omo-full.owl
@@ -12,7 +12,7 @@
      xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/omo/omo-full.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/omo/releases/2023-07-28/omo-full.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/omo/releases/2023-08-23/omo-full.owl"/>
         <protege:defaultLanguage>en</protege:defaultLanguage>
         <dc:contributor xml:lang="en">Adam Goldstein</dc:contributor>
         <dc:contributor xml:lang="en">Alan Ruttenberg</dc:contributor>
@@ -52,7 +52,7 @@
         <dc:description xml:lang="en">An ontology specifies terms that are used to annotate ontology terms for all OBO ontologies. The ontology was developed as part of Information Artifact Ontology (IAO).</dc:description>
         <dc:title xml:lang="en">OBO Metadata Ontology</dc:title>
         <terms:license rdf:resource="https://creativecommons.org/publicdomain/zero/1.0/"/>
-        <owl:versionInfo>2023-07-28</owl:versionInfo>
+        <owl:versionInfo>2023-08-23</owl:versionInfo>
     </owl:Ontology>
 
 
@@ -1544,6 +1544,20 @@ No imports</obo:IAO_0000115>
 
 
 
+    <!-- http://purl.obolibrary.org/obo/OMO_0001002 -->
+
+    <owl:NamedIndividual rdf:about="http://purl.obolibrary.org/obo/OMO_0001002">
+        <rdf:type rdf:resource="http://purl.obolibrary.org/obo/IAO_0000225"/>
+        <obo:IAO_0000115 xml:lang="en">The term was added to the ontology on the assumption it was a valid domain entity, but it turns out the entity does not exist in reality.</obo:IAO_0000115>
+        <obo:IAO_0000116 xml:lang="en">This obsolesence reason should be used conservatively. For example: Obsoleting class that describes a breed of cow based on a record in an existing database, that was later retracted as faulty (breed does not exist). Do not use this term to obsolete a historic concept (that was once valid, but not anymore). </obo:IAO_0000116>
+        <obo:IAO_0000117 rdf:resource="http://orcid.org/0000-0002-4142-7153"/>
+        <obo:IAO_0000233>https://github.com/information-artifact-ontology/ontology-metadata/issues/136</obo:IAO_0000233>
+        <obo:IAO_0000234>https://orcid.org/0000-0002-4142-7153</obo:IAO_0000234>
+        <rdfs:label>domain entity does not exist</rdfs:label>
+    </owl:NamedIndividual>
+
+
+
     <!-- 
     ///////////////////////////////////////////////////////////////////////////////////////
     //

diff --git a/omo.json b/omo.json
@@ -121,9 +121,9 @@
         "val" : "https://creativecommons.org/publicdomain/zero/1.0/"
       }, {
         "pred" : "http://www.w3.org/2002/07/owl#versionInfo",
-        "val" : "2023-07-28"
+        "val" : "2023-08-23"
       } ],
-      "version" : "http://purl.obolibrary.org/obo/omo/releases/2023-07-28/omo.json"
+      "version" : "http://purl.obolibrary.org/obo/omo/releases/2023-08-23/omo.json"
     },
     "nodes" : [ {
       "id" : "http://purl.obolibrary.org/obo/IAO_0000002",
@@ -470,6 +470,28 @@
           "val" : "https://orcid.org/0000-0001-5208-3432"
         } ]
       }
+    }, {
+      "id" : "http://purl.obolibrary.org/obo/OMO_0001002",
+      "lbl" : "domain entity does not exist",
+      "type" : "INDIVIDUAL",
+      "meta" : {
+        "definition" : {
+          "val" : "The term was added to the ontology on the assumption it was a valid domain entity, but it turns out the entity does not exist in reality."
+        },
+        "basicPropertyValues" : [ {
+          "pred" : "http://purl.obolibrary.org/obo/IAO_0000116",
+          "val" : "This obsolesence reason should be used conservatively. For example: Obsoleting class that describes a breed of cow based on a record in an existing database, that was later retracted as faulty (breed does not exist). Do not use this term to obsolete a historic concept (that was once valid, but not anymore). "
+        }, {
+          "pred" : "http://purl.obolibrary.org/obo/IAO_0000117",
+          "val" : "http://orcid.org/0000-0002-4142-7153"
+        }, {
+          "pred" : "http://purl.obolibrary.org/obo/IAO_0000233",
+          "val" : "https://github.com/information-artifact-ontology/ontology-metadata/issues/136"
+        }, {
+          "pred" : "http://purl.obolibrary.org/obo/IAO_0000234",
+          "val" : "https://orcid.org/0000-0002-4142-7153"
+        } ]
+      }
     }, {
       "id" : "http://purl.obolibrary.org/obo/IAO_0000027",
       "lbl" : "data item",
@@ -2058,6 +2080,10 @@
       "sub" : "http://purl.obolibrary.org/obo/OMO_0001000",
       "pred" : "type",
       "obj" : "http://purl.obolibrary.org/obo/IAO_0000225"
+    }, {
+      "sub" : "http://purl.obolibrary.org/obo/OMO_0001002",
+      "pred" : "type",
+      "obj" : "http://purl.obolibrary.org/obo/IAO_0000225"
     } ]
   } ]
 }
diff --git a/omo.obo b/omo.obo
@@ -1,5 +1,5 @@
 format-version: 1.2
-data-version: releases/2023-07-28
+data-version: releases/2023-08-23
 ontology: omo
 property_value: defaultLanguage "en" xsd:string
 property_value: http://purl.org/dc/elements/1.1/contributor "Adam Goldstein" xsd:string
@@ -40,7 +40,7 @@ property_value: http://purl.org/dc/elements/1.1/contributor "Yongqun (Oliver) He
 property_value: http://purl.org/dc/elements/1.1/description "An ontology specifies terms that are used to annotate ontology terms for all OBO ontologies. The ontology was developed as part of Information Artifact Ontology (IAO)." xsd:string
 property_value: http://purl.org/dc/elements/1.1/title "OBO Metadata Ontology" xsd:string
 property_value: http://purl.org/dc/terms/license https://creativecommons.org/publicdomain/zero/1.0/
-property_value: owl:versionInfo "2023-07-28" xsd:string
+property_value: owl:versionInfo "2023-08-23" xsd:string
 
 [Term]
 id: IAO:0000027

diff --git a/omo.owl b/omo.owl
@@ -12,7 +12,7 @@
      xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/omo.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/omo/releases/2023-07-28/omo.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/omo/releases/2023-08-23/omo.owl"/>
         <protege:defaultLanguage>en</protege:defaultLanguage>
         <dc:contributor xml:lang="en">Adam Goldstein</dc:contributor>
         <dc:contributor xml:lang="en">Alan Ruttenberg</dc:contributor>
@@ -52,7 +52,7 @@
         <dc:description xml:lang="en">An ontology specifies terms that are used to annotate ontology terms for all OBO ontologies. The ontology was developed as part of Information Artifact Ontology (IAO).</dc:description>
         <dc:title xml:lang="en">OBO Metadata Ontology</dc:title>
         <terms:license rdf:resource="https://creativecommons.org/publicdomain/zero/1.0/"/>
-        <owl:versionInfo>2023-07-28</owl:versionInfo>
+        <owl:versionInfo>2023-08-23</owl:versionInfo>
     </owl:Ontology>
 
 
@@ -1544,6 +1544,20 @@ No imports</obo:IAO_0000115>
 
 
 
+    <!-- http://purl.obolibrary.org/obo/OMO_0001002 -->
+
+    <owl:NamedIndividual rdf:about="http://purl.obolibrary.org/obo/OMO_0001002">
+        <rdf:type rdf:resource="http://purl.obolibrary.org/obo/IAO_0000225"/>
+        <obo:IAO_0000115 xml:lang="en">The term was added to the ontology on the assumption it was a valid domain entity, but it turns out the entity does not exist in reality.</obo:IAO_0000115>
+        <obo:IAO_0000116 xml:lang="en">This obsolesence reason should be used conservatively. For example: Obsoleting class that describes a breed of cow based on a record in an existing database, that was later retracted as faulty (breed does not exist). Do not use this term to obsolete a historic concept (that was once valid, but not anymore). </obo:IAO_0000116>
+        <obo:IAO_0000117 rdf:resource="http://orcid.org/0000-0002-4142-7153"/>
+        <obo:IAO_0000233>https://github.com/information-artifact-ontology/ontology-metadata/issues/136</obo:IAO_0000233>
+        <obo:IAO_0000234>https://orcid.org/0000-0002-4142-7153</obo:IAO_0000234>
+        <rdfs:label>domain entity does not exist</rdfs:label>
+    </owl:NamedIndividual>
+
+
+
     <!-- 
     ///////////////////////////////////////////////////////////////////////////////////////
     //