Package ubic.basecode.ontology.jena

Class TdbOntologyService

java.lang.Object

ubic.basecode.ontology.jena.AbstractOntologyService

ubic.basecode.ontology.jena.TdbOntologyService

All Implemented Interfaces:

AutoCloseable, OntologyService

public class TdbOntologyService
extends AbstractOntologyService

An implementation based on Jena TDB.

Author:

poirigui

Nested Class Summary

Nested classes/interfaces inherited from interface ubic.basecode.ontology.providers.OntologyService

OntologyService.InferenceMode, OntologyService.LanguageLevel

Field Summary

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

log

Constructor Summary

Constructors

Constructor	Description
TdbOntologyService(String ontologyName, Path tdbDir, String modelName, boolean ontologyEnabled, String cacheName)

Method Summary

Modifier and Type	Method	Description
void	close()
protected OntologyModel	loadModel(boolean processImports, OntologyService.LanguageLevel languageLevel, OntologyService.InferenceMode inferenceMode)	Delegates the call as to load the model into memory or leave it on disk.
protected OntologyModel	loadModelFromStream(InputStream is, boolean processImports, OntologyService.LanguageLevel languageLevel, OntologyService.InferenceMode inferenceMode)	Load a model from a given input stream.

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

cancelInitializationThread, findIndividuals, findResources, findTerm, findUsingAlternativeId, getAdditionalPropertyUris, getAllURIs, getCacheName, getChildren, getDescription, getExcludedWordsFromStemming, getInferenceMode, getLanguageLevel, getName, getOntologyName, getOntologyUrl, getParents, getProcessImports, getResource, getSpec, getTerm, getTermIndividuals, index, initialize, initialize, isEnabled, isInitializationThreadAlive, isInitializationThreadCancelled, isOntologyEnabled, isOntologyLoaded, isSearchEnabled, loadTermsInNameSpace, setAdditionalPropertyUris, setExcludedWordsFromStemming, setInferenceMode, setLanguageLevel, setProcessImports, setSearchEnabled, startInitializationThread, toString, waitForInitializationThread

Methods inherited from class java.lang.Object

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

Methods inherited from interface ubic.basecode.ontology.providers.OntologyService

findIndividuals, findResources, findTerm, getChildren, getParents

Constructor Detail

TdbOntologyService

public TdbOntologyService(String ontologyName,
                          Path tdbDir,
                          @Nullable
                          String modelName,
                          boolean ontologyEnabled,
                          @Nullable
                          String cacheName)

Method Detail

loadModel

protected OntologyModel loadModel(boolean processImports,
                                  OntologyService.LanguageLevel languageLevel,
                                  OntologyService.InferenceMode inferenceMode)

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

loadModelFromStream

protected OntologyModel loadModelFromStream(InputStream is,
                                            boolean processImports,
                                            OntologyService.LanguageLevel languageLevel,
                                            OntologyService.InferenceMode inferenceMode)

Description copied from class: AbstractOntologyService

Load a model from a given input stream.

Specified by:

loadModelFromStream in class AbstractOntologyService

close

public void close()
           throws Exception

Specified by:

close in interface AutoCloseable

Overrides:

close in class AbstractOntologyService

Throws:

Exception