private Set<OWLClassExpression> getInferredParents(
OWLOntology sourceOntology, OWLClass child, Set<OWLClass> viewed) {
Set<OWLClassExpression> result = new TreeSet<OWLClassExpression>();
if (!viewed.contains(child)) {
viewed.add(child);
Set<OWLClassExpression> parents = new TreeSet<OWLClassExpression>();
parents.addAll(child.getSuperClasses(sourceOntology));
parents.addAll(child.getEquivalentClasses(sourceOntology));
for (OWLClassExpression parent : parents) {
if (parent instanceof OWLClass) {
result.add(parent);
result.addAll(getInferredParents(sourceOntology, (OWLClass) parent, viewed));
} else if (parent instanceof OWLObjectIntersectionOf) {
Set<OWLClassExpression> inferredParents =
((OWLObjectIntersectionOf) parent).getOperands();
result.addAll(inferredParents);
for (OWLClassExpression inferredParent : inferredParents) {
if (inferredParent instanceof OWLClass) {
result.addAll(getInferredParents(sourceOntology, (OWLClass) inferredParent, viewed));
}
}
} else {
result.add(parent);
}
}
}
return result;
}
protected Concept getParentConcept(
OWLOntology o, OWLClass ontologyClass, File inDir, Authorizations authorizations)
throws IOException {
Set<OWLClassExpression> superClasses = ontologyClass.getSuperClasses(o);
if (superClasses.size() == 0) {
return getEntityConcept();
} else if (superClasses.size() == 1) {
OWLClassExpression superClassExpr = superClasses.iterator().next();
OWLClass superClass = superClassExpr.asOWLClass();
String superClassUri = superClass.getIRI().toString();
Concept parent = getConceptByIRI(superClassUri);
if (parent != null) {
return parent;
}
parent = importOntologyClass(o, superClass, inDir, authorizations);
if (parent == null) {
throw new LumifyException("Could not find or create parent: " + superClass);
}
return parent;
} else {
throw new LumifyException(
"Unhandled multiple super classes. Found " + superClasses.size() + ", expected 0 or 1.");
}
}