Package ubic.gemma.persistence.service.common.description

Interface BibliographicReferenceDao

All Superinterfaces:

BaseDao<BibliographicReference>, BaseVoEnabledDao<BibliographicReference,BibliographicReferenceValueObject>, BrowsingDao<BibliographicReference>

All Known Implementing Classes:

BibliographicReferenceDaoImpl

public interface BibliographicReferenceDao
extends BrowsingDao<BibliographicReference>, BaseVoEnabledDao<BibliographicReference,BibliographicReferenceValueObject>

See Also:

BibliographicReference

Method Summary

Modifier and Type	Method	Description
BibliographicReference	findByExternalId(String id, String databaseName)
BibliographicReference	findByExternalId(DatabaseEntry externalId)	Find by the external database id, such as for PubMed
Map<ExpressionExperiment,BibliographicReference>	getAllExperimentLinkedReferences()
Map<BibliographicReference,Collection<ExpressionExperiment>>	getRelatedExperiments(Collection<BibliographicReference> records)
Collection<Long>	listAll()
Collection<BibliographicReference>	thaw(Collection<BibliographicReference> bibliographicReferences)
BibliographicReference	thaw(BibliographicReference bibliographicReference)

Methods inherited from interface ubic.gemma.persistence.service.BaseDao

countAll, create, create, find, findOrCreate, getElementClass, getIdentifierPropertyName, load, load, loadAll, loadReference, loadReference, remove, remove, remove, save, save, update, update

Methods inherited from interface ubic.gemma.persistence.service.BaseVoEnabledDao

loadAllValueObjects, loadValueObject, loadValueObjectById, loadValueObjects, loadValueObjectsByIds

Methods inherited from interface ubic.gemma.persistence.service.BrowsingDao

browse, browse

Method Detail

findByExternalId

BibliographicReference findByExternalId(String id,
                                        String databaseName)

findByExternalId

BibliographicReference findByExternalId(DatabaseEntry externalId)

Find by the external database id, such as for PubMed

Parameters:

externalId - external database id

Returns:

found bibliographic reference

getAllExperimentLinkedReferences

Map<ExpressionExperiment,BibliographicReference> getAllExperimentLinkedReferences()

thaw

BibliographicReference thaw(BibliographicReference bibliographicReference)

thaw

Collection<BibliographicReference> thaw(Collection<BibliographicReference> bibliographicReferences)

getRelatedExperiments

Map<BibliographicReference,Collection<ExpressionExperiment>> getRelatedExperiments(Collection<BibliographicReference> records)

listAll

Collection<Long> listAll()