Package ubic.gemma.persistence.service.analysis.expression.diff

Class GeneDiffExMetaAnalysisDaoImpl

java.lang.Object

ubic.gemma.persistence.service.AbstractDao<GeneDifferentialExpressionMetaAnalysis>

ubic.gemma.persistence.service.analysis.expression.diff.GeneDiffExMetaAnalysisDaoImpl

All Implemented Interfaces:

GeneDiffExMetaAnalysisDao, BaseDao<GeneDifferentialExpressionMetaAnalysis>

@Repository
public class GeneDiffExMetaAnalysisDaoImpl
extends AbstractDao<GeneDifferentialExpressionMetaAnalysis>
implements GeneDiffExMetaAnalysisDao

Author:

Paul

Field Summary

Fields inherited from class ubic.gemma.persistence.service.AbstractDao

log

Constructor Summary

Constructors

Constructor	Description
GeneDiffExMetaAnalysisDaoImpl(SessionFactory sessionFactory)

Method Summary

Modifier and Type	Method	Description
Collection<GeneDifferentialExpressionMetaAnalysis>	findByExperiment(BioAssaySet experiment)
Map<BioAssaySet,Collection<GeneDifferentialExpressionMetaAnalysis>>	findByExperiments(Collection<? extends BioAssaySet> experiments)
Collection<GeneDifferentialExpressionMetaAnalysis>	findByName(String name)
Collection<GeneDifferentialExpressionMetaAnalysis>	findByTaxon(Taxon taxon)
Collection<IncludedResultSetInfoValueObject>	findIncludedResultSetsInfoById(long analysisId)
Collection<GeneDifferentialExpressionMetaAnalysisSummaryValueObject>	findMetaAnalyses(Collection<Long> metaAnalysisIds)
Collection<GeneDifferentialExpressionMetaAnalysisResultValueObject>	findResultsById(long analysisId)
Collection<Long>	getExperimentsWithAnalysis(Collection<Long> idsToFilter)
GeneDifferentialExpressionMetaAnalysisResult	loadResult(Long idResult)	loads a neDifferentialExpressionMetaAnalysisResult
GeneDifferentialExpressionMetaAnalysis	loadWithResultId(Long idResult)	loads a DifferentialExpressionMetaAnalysis containing a specific result
void	removeForExperiment(BioAssaySet ee)

Methods inherited from class ubic.gemma.persistence.service.AbstractDao

countAll, create, create, find, findByProperty, findByPropertyIn, findOneByProperty, findOrCreate, getBatchSize, getElementClass, getEntityName, getIdentifierPropertyName, getSessionFactory, load, load, loadAll, loadReference, loadReference, reload, reload, remove, remove, remove, save, save, streamAll, streamAll, streamQuery, update, update

Methods inherited from class java.lang.Object

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

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

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

Constructor Details

GeneDiffExMetaAnalysisDaoImpl

@Autowired
public GeneDiffExMetaAnalysisDaoImpl(SessionFactory sessionFactory)

Method Details

findIncludedResultSetsInfoById

public Collection<IncludedResultSetInfoValueObject> findIncludedResultSetsInfoById(long analysisId)

Specified by:

findIncludedResultSetsInfoById in interface GeneDiffExMetaAnalysisDao

Parameters:

analysisId - id

Returns:

a collection of included result set info value objects using the given meta-analysis id

findMetaAnalyses

public Collection<GeneDifferentialExpressionMetaAnalysisSummaryValueObject> findMetaAnalyses(Collection<Long> metaAnalysisIds)

Specified by:

findMetaAnalyses in interface GeneDiffExMetaAnalysisDao

Parameters:

metaAnalysisIds - ids

Returns:

a collection of summary value objects using the given ids of meta-analyses

findResultsById

public Collection<GeneDifferentialExpressionMetaAnalysisResultValueObject> findResultsById(long analysisId)

Specified by:

findResultsById in interface GeneDiffExMetaAnalysisDao

Parameters:

analysisId - id

Returns:

a collection of result value objects using the given meta-analysis id

getExperimentsWithAnalysis

public Collection<Long> getExperimentsWithAnalysis(Collection<Long> idsToFilter)

Specified by:

getExperimentsWithAnalysis in interface GeneDiffExMetaAnalysisDao

loadResult

public GeneDifferentialExpressionMetaAnalysisResult loadResult(Long idResult)

loads a neDifferentialExpressionMetaAnalysisResult

Specified by:

loadResult in interface GeneDiffExMetaAnalysisDao

loadWithResultId

public GeneDifferentialExpressionMetaAnalysis loadWithResultId(Long idResult)

loads a DifferentialExpressionMetaAnalysis containing a specific result

Specified by:

loadWithResultId in interface GeneDiffExMetaAnalysisDao

findByExperiment

public Collection<GeneDifferentialExpressionMetaAnalysis> findByExperiment(BioAssaySet experiment)

Specified by:

findByExperiment in interface GeneDiffExMetaAnalysisDao

findByExperiments

public Map<BioAssaySet,Collection<GeneDifferentialExpressionMetaAnalysis>> findByExperiments(Collection<? extends BioAssaySet> experiments)

Specified by:

findByExperiments in interface GeneDiffExMetaAnalysisDao

findByName

public Collection<GeneDifferentialExpressionMetaAnalysis> findByName(String name)

Specified by:

findByName in interface GeneDiffExMetaAnalysisDao

findByTaxon

public Collection<GeneDifferentialExpressionMetaAnalysis> findByTaxon(Taxon taxon)

Specified by:

findByTaxon in interface GeneDiffExMetaAnalysisDao

removeForExperiment

public void removeForExperiment(BioAssaySet ee)

Specified by:

removeForExperiment in interface GeneDiffExMetaAnalysisDao