#145 addind owl:versionInfo yyyy-mm-dd to imported and defined entiti…

…es through extracting date from related ontology versionIRIs

src/ontology/bdscratch.Makefile

@@ -29,6 +29,23 @@ dosdp_patterns_default: $(SRC) all_imports .FORCE
 $(PATTERNDIR)/data/default/%.txt: $(PATTERNDIR)/dosdp-patterns/%.yaml $(PATTERNDIR)/data/default/%.tsv .FORCE
 	if [ $(PAT) = true ]; then $(DOSDPT) terms --prefixes=template_prefixes.yaml --infile=$(word 2, $^) --template=$< --obo-prefixes=true --outfile=$@; fi
 
+# adding an extra query step to inject version info to imported entities
+imports/%_import.owl: mirror/%.owl imports/%_terms_combined.txt
+	if [ $(IMP) = true ]; then $(ROBOT) query  -i $< --update ../sparql/inject-version-info.ru --update ../sparql/preprocess-module.ru \
+		extract -T imports/$*_terms_combined.txt --force true --copy-ontology-annotations true --individuals exclude --method BOT \
+		query --update ../sparql/inject-subset-declaration.ru --update ../sparql/postprocess-module.ru \
+		annotate --ontology-iri $(ONTBASE)/$@ $(ANNOTATE_ONTOLOGY_VERSION) --output $@.tmp.owl && mv $@.tmp.owl $@; fi
+
+# Full: The full artefacts with imports merged, reasoned. Added extra step to inject version info to entities
+$(ONT)-full.owl: $(SRC) $(OTHER_SRC)
+	$(ROBOT) merge --input $< \
+		reason --reasoner ELK --equivalent-classes-allowed all --exclude-tautologies structural \
+		relax \
+		reduce -r ELK \
+		annotate --ontology-iri $(ONTBASE)/$@ $(ANNOTATE_ONTOLOGY_VERSION) \
+		query --update ../sparql/inject-version-info.ru \
+		--output $@.tmp.owl && mv $@.tmp.owl $@
+
 # hard wiring for now.  Work on patsubst later
 mirror/ensmusg.owl: ../templates/ensmusg.tsv
 	if [ $(MIR) = true ] && [ $(IMP) = true ]; then $(ROBOT) template --input bdscratch-edit.owl --template $< \

src/sparql/inject-version-info.ru

@@ -0,0 +1,26 @@
+PREFIX : <http://www.test.com/ns/test#>
+PREFIX owl:  <http://www.w3.org/2002/07/owl#>
+PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
+PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
+PREFIX dc: <http://purl.org/dc/elements/1.1/>
+
+INSERT {
+    ?individual owl:versionInfo ?versionStr .
+    ?class owl:versionInfo ?versionStr .
+}
+WHERE {
+    ?ontology rdf:type owl:Ontology ;
+        owl:versionIRI ?versionIRI .
+    # regex matches date and the previous text in the iri. When replaced string after the date remains
+    BIND (REPLACE(str(?versionIRI), "^.*\\d{4}[\\-]\\d{2}[\\-]\\d{2}", "") AS ?dateTrailingStr)
+    # regex matches date and the trailing text in the iri. When replaced string before the date remains
+    BIND (REPLACE(str(?versionIRI), "\\d{4}[\\-]\\d{2}[\\-]\\d{2}.*$", "") AS ?dateHeadingStr)
+    # replace heading and trailing text in the versionIRI to remain only the date
+    BIND (REPLACE(str(?versionIRI), ?dateTrailingStr, "") AS ?versionSubStr)
+    BIND (REPLACE(str(?versionSubStr), ?dateHeadingStr, "") AS ?versionStr)
+
+    ?class rdf:type owl:Class .
+    OPTIONAL { ?individual rdf:type owl:NamedIndividual . FILTER NOT EXISTS {?individual owl:versionInfo ?o1} }
+    FILTER (!isBlank(?class))
+    FILTER NOT EXISTS {?class owl:versionInfo ?o2}
+}