ubic.basecode.ontology.providers

Class GenericOntologyService

java.lang.Object

ubic.basecode.ontology.providers.AbstractOntologyService

ubic.basecode.ontology.providers.GenericOntologyService

public class GenericOntologyService
extends AbstractOntologyService

A way to create ad hoc ontology services (in memory) for testing

Author:

Paul

Nested Class Summary

Nested classes/interfaces inherited from class ubic.basecode.ontology.providers.AbstractOntologyService

AbstractOntologyService.OntologyInitializationThread

Field Summary

Fields inherited from class ubic.basecode.ontology.providers.AbstractOntologyService

cacheReady, index, indexReady, individuals, initializationThread, isInitialized, log, model, modelReady, terms

Constructor Summary

Constructors

Constructor and Description
GenericOntologyService(String name, String url)
GenericOntologyService(String name, String url, boolean cache)

Method Summary

Modifier and Type	Method and Description
protected String	getOntologyName() The simple name of the ontology.
protected String	getOntologyUrl() Defines the location of the ontology eg: http://mged.sourceforge.net/ontologies/MGEDOntology.owl
protected com.hp.hpl.jena.ontology.OntModel	loadModel() Delegates the call as to load the model into memory or leave it on disk.

Methods inherited from class ubic.basecode.ontology.providers.AbstractOntologyService

addTerms, closeIndex, findIndividuals, findResources, findTerm, findUsingAlternativeId, getAllURIs, getModel, getResource, getTerm, getTermIndividuals, index, isEnabled, isInitializationThreadAlive, isOntologyLoaded, loadTermsInNameSpace, startInitializationThread

Methods inherited from class java.lang.Object

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

Constructor Detail

GenericOntologyService

public GenericOntologyService(String name,
                              String url)

GenericOntologyService

public GenericOntologyService(String name,
                              String url,
                              boolean cache)

Method Detail

getOntologyName

protected String getOntologyName()

Description copied from class: AbstractOntologyService

The simple name of the ontology. Used for indexing purposes. (ie this will determine the name of the underlying index for searching the ontology)

Specified by:

getOntologyName in class AbstractOntologyService

Returns:

getOntologyUrl

protected String getOntologyUrl()

Description copied from class: AbstractOntologyService

Defines the location of the ontology eg: http://mged.sourceforge.net/ontologies/MGEDOntology.owl

Specified by:

getOntologyUrl in class AbstractOntologyService

Returns:

loadModel

protected com.hp.hpl.jena.ontology.OntModel loadModel()

Description copied from class: AbstractOntologyService

Delegates the call as to load the model into memory or leave it on disk. Simply delegates to either OntologyLoader.loadMemoryModel( url ); OR OntologyLoader.loadPersistentModel( url, spec );

Specified by:

loadModel in class AbstractOntologyService

Returns: