onthologies: also added new entries to generic ('oneOf') classes

toardb/utils/TOARII_ontology.py

@@ -4,9 +4,15 @@ class TOAR_Ontology
 ===================
 """
 
+__author__ = "Sabine Schroeder"
+__version__ = "0.9.1"
+__maintainer__ = "Sabine Schroeder"
+__email__ = "s.schroeder@fz-juelich.de"
+
 import rdflib
-from rdflib import URIRef, Literal
-from rdflib.namespace import RDF, RDFS, SKOS
+from rdflib import URIRef, Literal, BNode
+from rdflib.namespace import RDF, RDFS, SKOS, OWL
+from rdflib.collection import Collection
 
 class TOAR_Ontology:
     """
@@ -27,22 +33,25 @@ class TOAR_Ontology:
     get_class(title):
         find the onthology class for the given title
 
-    def show_class_definition(ont_class):
+    get_class_by_id(self, id):
+        find the onthology class for the given id
+
+    show_class_definition(ont_class):
         show information on given ontology class
 
     show_entries(ont_class):
         show information on given ontology class
 
-    def add_entry(self, ont_class, idcount, label, definition):
+    add_entry(self, ont_class, idcount, label, definition):
         add entry to given ontology class
 
-    def check_entry(entry, ont_class):
+    check_entry(entry, ont_class):
         check whether entry is a valid value of the ontology
 
     print(format=""):
         Prints the onthology in the given format
 
-    def save(self, filename):
+    save(self, filename):
         save the onthology in json-ld format to the given file
     """
 
@@ -58,12 +67,21 @@ class TOAR_Ontology:
         """
         find the onthology class for the given title
         """
-        for s, p, o in self.graph.triples( (None,  RDF.type, rdflib.URIRef("http://www.w3.org/2002/07/owl#Class") ) ):
+        for s, p, o in self.graph.triples( (None,  RDF.type, OWL.Class) ):
             value = self.graph.value(subject=s,predicate=RDFS.label)
             if value and value.strip() == title.strip():
                 ont_class = s
         return ont_class
 
+    def get_class_by_id(self, id):
+        """
+        find the onthology class for the given id
+        """
+        for s, p, o in self.graph.triples( (None,  RDF.type, OWL.Class) ):
+            if s.strip() == id.strip():
+                ont_class = s
+        return ont_class
+
     def show_class_definition(self, ont_class):
         """
         show information on given ontology class
@@ -85,15 +103,33 @@ class TOAR_Ontology:
         """
         add entry to given ontology class
         """
-        print(f"add entry to '{ont_class}'")
-        s=URIRef(f"http://www.fz-juelich.de/ontologies/2020/ToarOntotology#OWLNamedIndividual_{idcount:06d}")
-        p=URIRef("http://www.w3.org/1999/02/22-rdf-syntax-ns#type")
+        # still to do:
+        # how to get rid of "http://www.fz-juelich.de/ontologies/2020/ToarOntotology"?!
+        subject=URIRef(f"http://www.fz-juelich.de/ontologies/2020/ToarOntotology#OWLNamedIndividual_{idcount:06d}")
+        p=RDF.type
         o=URIRef(ont_class)
-        self.graph.add((s,p,o))
-        o=URIRef("http://www.w3.org/2002/07/owl#NamedIndividual")
-        self.graph.add((s,p,o))
-        self.graph.add((s,RDFS.label,Literal(label,lang="en")))
-        self.graph.add((s,SKOS.definition,Literal(definition)))
+        self.graph.add((subject,p,o))
+        o=OWL.NamedIndividual
+        self.graph.add((subject,p,o))
+        self.graph.add((subject,RDFS.label,Literal(label,lang="en")))
+        self.graph.add((subject,SKOS.definition,Literal(definition)))
+        # if there is an equivalent class: add the entry also there!
+        for s, p, o in self.graph.triples( (ont_class,  OWL.equivalentClass, None) ):
+            equivalentClass = self.get_class_by_id(o)
+            # get oneOf-List of equivalentClass
+            for s, p, o in self.graph.triples( (equivalentClass,  OWL.oneOf, None) ):
+                c = Collection(self.graph, BNode(o))
+                c.append(subject)
+# The following is just an example how to iterate through a linked list
+#               # The obtained list is a linked list,
+#               # consisting of the first element and the rest (which is a linked list again)
+#               newSubject = o
+#               while newSubject != RDF.nil:
+#                   for s, p, o in self.graph.triples( (newSubject,  RDF.first, None) ):
+#                       print(f"first {newSubject}: s={s}, p={p}, o={o}")
+#                   for s, p, o in self.graph.triples( (newSubject,  RDF.rest, None) ):
+#                       print(f"rest {newSubject}: s={s}, p={p}, o={o}")
+#                   newSubject=o
 
     def check_entry(self, entry, ont_class):
         """

toardb/utils/onto_example.py

@@ -28,5 +28,4 @@ onto.add_entry(ccclass,196,'SX', 'Sint Maarten (Dutch part)')
 onto.add_entry(ccclass,197,'BE', 'Belgium')
 onto.check_entry('BE',ccclass)
 onto.show_entries(ccclass)
-#nun hier entsprechendes für Timezone
 onto.save('TOAR-Ontology-TimeZone-CountryCode_20210128.owl')