Package ubic.gemma.persistence.service.expression.bioAssayData

Class AbstractDesignElementDataVectorService<T extends DesignElementDataVector>

java.lang.Object

ubic.gemma.persistence.service.AbstractService<T>

ubic.gemma.persistence.service.expression.bioAssayData.AbstractDesignElementDataVectorService<T>

All Implemented Interfaces:

BaseService<T>

Direct Known Subclasses:

ProcessedExpressionDataVectorServiceImpl, RawExpressionDataVectorServiceImpl

public abstract class AbstractDesignElementDataVectorService<T extends DesignElementDataVector>
extends AbstractService<T>

Field Summary

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

log

Constructor Summary

Constructors

Modifier	Constructor	Description
protected	AbstractDesignElementDataVectorService(DesignElementDataVectorDao<T> mainDao)

Method Summary

Modifier and Type	Method	Description
Collection<T>	find(Collection<QuantitationType> quantitationTypes)
Collection<T>	find(Collection<CompositeSequence> designElements, QuantitationType quantitationType)
Collection<T>	find(QuantitationType quantitationType)
Collection<T>	find(ArrayDesign arrayDesign, QuantitationType quantitationType)
Collection<T>	find(BioAssayDimension bioAssayDimension)
Collection<T>	findByExpressionExperiment(ExpressionExperiment expressionExperiment, QuantitationType quantitationType)
Collection<DesignElementDataVector>	findRawAndProcessed(QuantitationType qt)
Collection<DesignElementDataVector>	findRawAndProcessed(BioAssayDimension dim)
void	removeDataForCompositeSequence(CompositeSequence compositeSequence)
void	removeDataForQuantitationType(QuantitationType quantitationType)
void	thaw(Collection<T> designElementDataVectors)
void	thawRawAndProcessed(Collection<DesignElementDataVector> vectors)
void	update(T dedv)	Updates the given entity in the persistent storage.

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

countAll, create, create, find, findOrCreate, load, load, loadAll, remove, remove, remove, removeAll, save, save, 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.BaseService

countAll, create, create, find, findOrCreate, load, load, loadAll, remove, remove, remove, removeAll, save, save, update

Constructor Detail

AbstractDesignElementDataVectorService

protected AbstractDesignElementDataVectorService(DesignElementDataVectorDao<T> mainDao)

Method Detail

thawRawAndProcessed

@Transactional(readOnly=true)
public void thawRawAndProcessed(Collection<DesignElementDataVector> vectors)

findRawAndProcessed

@Transactional(readOnly=true)
public Collection<DesignElementDataVector> findRawAndProcessed(BioAssayDimension dim)

findRawAndProcessed

@Transactional(readOnly=true)
public Collection<DesignElementDataVector> findRawAndProcessed(QuantitationType qt)

removeDataForCompositeSequence

@Transactional
public void removeDataForCompositeSequence(CompositeSequence compositeSequence)

removeDataForQuantitationType

@Transactional
public void removeDataForQuantitationType(QuantitationType quantitationType)

thaw

@Transactional(readOnly=true)
public void thaw(Collection<T> designElementDataVectors)

find

@Transactional(readOnly=true)
public Collection<T> find(ArrayDesign arrayDesign,
                          QuantitationType quantitationType)

find

@Transactional(readOnly=true)
public Collection<T> find(BioAssayDimension bioAssayDimension)

find

@Transactional(readOnly=true)
public Collection<T> find(Collection<QuantitationType> quantitationTypes)

find

@Transactional(readOnly=true)
public Collection<T> find(QuantitationType quantitationType)

find

@Transactional(readOnly=true)
public Collection<T> find(Collection<CompositeSequence> designElements,
                          QuantitationType quantitationType)

findByExpressionExperiment

@Transactional(readOnly=true)
public Collection<T> findByExpressionExperiment(ExpressionExperiment expressionExperiment,
                                                QuantitationType quantitationType)

update

@Secured("GROUP_USER")
public abstract void update(T dedv)

Description copied from interface: BaseService

Updates the given entity in the persistent storage.

Specified by:

update in interface BaseService<T extends DesignElementDataVector>

Parameters:

dedv - the entity to be updated.