org.molgenis.omx.biobankconnect.utils

Class OntologyCreator

java.lang.Object

org.molgenis.omx.biobankconnect.utils.OntologyCreator

public class OntologyCreator
extends Object

Constructor Summary

Constructors

Constructor and Description
OntologyCreator(org.semanticweb.owlapi.model.OWLOntologyManager manager, org.semanticweb.owlapi.model.OWLDataFactory factory, OntologyLoader ontologyLoader)
OntologyCreator(String prefix)

Method Summary

Methods

Modifier and Type	Method and Description
void	addAnnotations(org.semanticweb.owlapi.model.OWLClass cls, Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations)
void	addClass(org.semanticweb.owlapi.model.OWLClass cls, org.semanticweb.owlapi.model.OWLClass parentClass)
void	addLabel(org.semanticweb.owlapi.model.OWLClass cls, String label)
void	addSynonym(org.semanticweb.owlapi.model.OWLClass cls, String synonym)
void	copyClass(org.semanticweb.owlapi.model.OWLClass cls, org.semanticweb.owlapi.model.OWLClass parentClass, OntologyLoader ontologyLoader)
void	copySubclass(org.semanticweb.owlapi.model.OWLClass cls, OntologyLoader ontologyLoader)
org.semanticweb.owlapi.model.OWLAnnotation	createAnnotation(String text, String property)
org.semanticweb.owlapi.model.OWLAnnotation	createDefinitionAnnotation(String definition)
org.semanticweb.owlapi.model.OWLAnnotation	createLabelAnnotation(String label)
void	createOntology(String ontologyIRI)
org.semanticweb.owlapi.model.OWLClass	createOWLClass(String URI)
void	parseOntologyTerms(Set<String> terms, OntologyLoader ontologyLoader)
void	saveOntology(File file)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

OntologyCreator

public OntologyCreator(String prefix)
                throws org.semanticweb.owlapi.model.OWLOntologyCreationException

Throws:

org.semanticweb.owlapi.model.OWLOntologyCreationException

OntologyCreator

public OntologyCreator(org.semanticweb.owlapi.model.OWLOntologyManager manager,
               org.semanticweb.owlapi.model.OWLDataFactory factory,
               OntologyLoader ontologyLoader)

Method Detail

addClass

public void addClass(org.semanticweb.owlapi.model.OWLClass cls,
            org.semanticweb.owlapi.model.OWLClass parentClass)

addSynonym

public void addSynonym(org.semanticweb.owlapi.model.OWLClass cls,
              String synonym)

addLabel

public void addLabel(org.semanticweb.owlapi.model.OWLClass cls,
            String label)

createOWLClass

public org.semanticweb.owlapi.model.OWLClass createOWLClass(String URI)

createLabelAnnotation

public org.semanticweb.owlapi.model.OWLAnnotation createLabelAnnotation(String label)

createDefinitionAnnotation

public org.semanticweb.owlapi.model.OWLAnnotation createDefinitionAnnotation(String definition)

createAnnotation

public org.semanticweb.owlapi.model.OWLAnnotation createAnnotation(String text,
                                                          String property)

addAnnotations

public void addAnnotations(org.semanticweb.owlapi.model.OWLClass cls,
                  Set<org.semanticweb.owlapi.model.OWLAnnotation> annotations)

createOntology

public void createOntology(String ontologyIRI)
                    throws org.semanticweb.owlapi.model.OWLOntologyCreationException

Throws:

org.semanticweb.owlapi.model.OWLOntologyCreationException

saveOntology

public void saveOntology(File file)
                  throws org.semanticweb.owlapi.model.OWLOntologyStorageException

Throws:

org.semanticweb.owlapi.model.OWLOntologyStorageException

copyClass

public void copyClass(org.semanticweb.owlapi.model.OWLClass cls,
             org.semanticweb.owlapi.model.OWLClass parentClass,
             OntologyLoader ontologyLoader)

copySubclass

public void copySubclass(org.semanticweb.owlapi.model.OWLClass cls,
                OntologyLoader ontologyLoader)

parseOntologyTerms

public void parseOntologyTerms(Set<String> terms,
                      OntologyLoader ontologyLoader)