EntitySearcher ignores annotations from imports

[reality]

The EntitySearcher interface seems to have no way to obtain annotations from classes residing in imported ontologies. The following code will not return any annotations from imported ontologies:

EntitySearcher.getAnnotations(oClass, ontology).each { annotation ->
  println annotation
}

You can obtain them using the annotationAssertionAxioms stream in OWLOntology:

ontology.annotationAssertionAxioms(oClass.getIRI(), Imports.INCLUDED).each {
  println it
}

Would it be possible to add the same Imports enum flag to the EntitySearcher annotation methods? I notice that some of the methods already have this functionality, e.g. getAxiomsIgnoreAnnotations

Thank you!

[ignazio1977]

To get the annotations from imported ontologies, pass the imports closure in the method. All methods are overloaded to accept a single ontology or a collection/stream of ontologies (depending whether you're using version 4 or 5).

[jamesamcl]

To get the annotations from imported ontologies, pass the imports closure in the method. All methods are overloaded to accept a single ontology or a collection/stream of ontologies (depending whether you're using version 4 or 5).

This seems true for getAnnotationObjects but not getAnnotations?

I don't see any overload that takes a collection/stream of ontologies:

owlapi/api/src/main/java/org/semanticweb/owlapi/search/EntitySearcher.java

Lines 64 to 105 in b683b03

	/**
	* Gets the annotations for e. These are deemed to be annotations in annotation assertion axioms
	* that have a subject that is an IRI that is equal to the IRI of e, and it also includes
	* annotations on the annotation assertion axioms whose annotation property matches
	*
	* @param e entity
	* @param ontology The ontology to be examined for annotation assertion axioms
	* @return The annotations that participate directly in an annotation assertion whose subject is
	* an IRI corresponding to the IRI of e.
	*/
	public static Stream<OWLAnnotation> getAnnotations(OWLEntity e, OWLOntology ontology) {
	return getAnnotations(e.getIRI(), ontology);
	}
	/**
	* Gets the annotations for e. These are deemed to be annotations in annotation assertion axioms
	* that have a subject that is an IRI that is equal to the IRI of e, and it also includes
	* annotations on the annotation assertion axioms whose annotation property matches.
	*
	* @param e entity
	* @param ontology The ontology to be examined for annotation assertion axioms
	* @return The annotations that participate directly in an annotation assertion whose subject is
	* an IRI corresponding to the IRI of e.
	*/
	public static Stream<OWLAnnotation> getAnnotations(OWLAnnotationSubject e,
	OWLOntology ontology) {
	return Searcher.annotations(ontology.annotationAssertionAxioms(e));
	}
	/**
	* Obtains the annotations on e where the annotation has the specified annotation property. This
	* includes the annotations on annotation assertion axioms with matching annotation property.
	*
	* @param e entity
	* @param ontology The ontology to examine for annotation axioms
	* @param annotationProperty The annotation property
	* @return A {@code Stream} of {@code OWLAnnotation} objects that have the specified URI.
	*/
	public static Stream<OWLAnnotation> getAnnotations(OWLEntity e, OWLOntology ontology,
	OWLAnnotationProperty annotationProperty) {
	return getAnnotations(e.getIRI(), ontology, annotationProperty);
	}