Update DOSDP template and SPARQL qc documentation (#6545)

Co-authored-by: nicolevasilevsky <[email protected]>
monarch-initiative · Aug 11, 2023 · c237afe · c237afe
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Showing 4 changed files with 26 additions and 3 deletions.
diff --git a/docs/editors-guide/quality-control-tests.md b/docs/editors-guide/quality-control-tests.md
@@ -1154,6 +1154,29 @@ ORDER BY ?entity
 
 ```
 
+###  qc-obsoletion-reason.sparql
+
+```
+PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
+PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
+PREFIX IAO: <http://purl.obolibrary.org/obo/IAO_>
+PREFIX OMO: <http://purl.obolibrary.org/obo/OMO_>
+PREFIX MONDO: <http://purl.obolibrary.org/obo/MONDO_>
+
+# description: Checks if a proper obsolesence reason was documented for this class
+
+SELECT ?entity ?property ?value WHERE {
+  VALUES ?property { IAO:0000231 }
+  ?entity ?property ?value .
+  FILTER(!isIRI(?value))
+  FILTER(?value!=OMO:00001000 || 
+    ?value!=IAO:0000423 ||
+    ?value!=IAO:0000229 ||
+    ?value!=MONDO:TermsMerged )
+  FILTER (isIRI(?entity) && STRSTARTS(str(?entity), "http://purl.obolibrary.org/obo/MONDO_"))	
+}
+```
+
 ###  qc-owldef-self-reference.sparql
 
 ```

diff --git a/src/patterns/pattern-merged.owl b/src/patterns/pattern-merged.owl
@@ -10,7 +10,7 @@
      xmlns:terms="http://purl.org/dc/terms/"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/mondo/mondo-pattern.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/mondo/releases/2023-08-07/mondo-pattern.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/mondo/releases/2023-08-10/mondo-pattern.owl"/>
     </owl:Ontology>
 
 

diff --git a/src/patterns/pattern-with-imports.owl b/src/patterns/pattern-with-imports.owl
@@ -12,7 +12,7 @@
      xmlns:terms="http://purl.org/dc/terms/"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/mondo/mondo-pattern.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/mondo/releases/2023-08-07/mondo-pattern.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/mondo/releases/2023-08-10/mondo-pattern.owl"/>
     </owl:Ontology>
 
 

diff --git a/src/patterns/pattern.owl b/src/patterns/pattern.owl
@@ -12,7 +12,7 @@
      xmlns:terms="http://purl.org/dc/terms/"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/mondo/patterns/pattern.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/mondo/releases/2023-08-07/mondo-pattern.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/mondo/releases/2023-08-10/mondo-pattern.owl"/>
     </owl:Ontology>