ubic.gemma.persistence.service.expression.bioAssayData

Class RawExpressionDataVectorDaoImpl

java.lang.Object

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

ubic.gemma.persistence.service.expression.bioAssayData.DesignElementDataVectorDaoImpl<RawExpressionDataVector>

ubic.gemma.persistence.service.expression.bioAssayData.RawExpressionDataVectorDaoImpl

All Implemented Interfaces:

BaseDao<RawExpressionDataVector>, DesignElementDataVectorDao<RawExpressionDataVector>, RawExpressionDataVectorDao

@Repository
public class RawExpressionDataVectorDaoImpl
extends DesignElementDataVectorDaoImpl<RawExpressionDataVector>
implements RawExpressionDataVectorDao

Author:

paul

Field Summary

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

elementClass, log

Constructor Summary

Constructors

Constructor and Description
RawExpressionDataVectorDaoImpl(SessionFactory sessionFactory)

Method Summary

Modifier and Type	Method and Description
ExpressionExperiment	addVectors(Long eeId, Collection<RawExpressionDataVector> vectors)
Collection<RawExpressionDataVector>	find(ArrayDesign arrayDesign, QuantitationType quantitationType)
Collection<RawExpressionDataVector>	find(BioAssayDimension bioAssayDimension)
Collection<RawExpressionDataVector>	find(Collection<CompositeSequence> designElements, QuantitationType quantitationType)
Collection<RawExpressionDataVector>	find(Collection<QuantitationType> quantitationTypes)
RawExpressionDataVector	find(RawExpressionDataVector designElementDataVector) Does a look up for the given entity in the persistent storage, usually looking for a specific identifier ( either id or a string property).
Collection<RawExpressionDataVector>	findByExpressionExperiment(ExpressionExperiment ee, QuantitationType quantitationType) Find expression vectors by ExpressionExperiment.
void	removeDataForCompositeSequence(CompositeSequence compositeSequence)
void	removeDataForQuantitationType(QuantitationType quantitationType)

Methods inherited from class ubic.gemma.persistence.service.expression.bioAssayData.DesignElementDataVectorDaoImpl

find, findRawAndProcessed, findRawAndProcessed, removeRawAndProcessed, thaw, thaw, thawRawAndProcessed

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

countAll, create, create, findByProperty, findByPropertyIn, findOneByProperty, findOrCreate, flush, flushAndClear, getElementClass, getSessionFactory, load, load, loadAll, reattach, reattach, 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.expression.bioAssayData.DesignElementDataVectorDao

create, create, find, findRawAndProcessed, findRawAndProcessed, load, loadAll, removeRawAndProcessed, thaw, thaw, thawRawAndProcessed

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

countAll, findOrCreate, getElementClass, load, remove, remove, remove, removeAll, save, save, update, update

Constructor Detail

RawExpressionDataVectorDaoImpl

@Autowired
public RawExpressionDataVectorDaoImpl(SessionFactory sessionFactory)

Method Detail

addVectors

public ExpressionExperiment addVectors(Long eeId,
                                       Collection<RawExpressionDataVector> vectors)

Specified by:

addVectors in interface RawExpressionDataVectorDao

find

public Collection<RawExpressionDataVector> find(BioAssayDimension bioAssayDimension)

Specified by:

find in interface DesignElementDataVectorDao<RawExpressionDataVector>

find

public Collection<RawExpressionDataVector> find(Collection<QuantitationType> quantitationTypes)

Specified by:

find in interface DesignElementDataVectorDao<RawExpressionDataVector>

find

public Collection<RawExpressionDataVector> find(ArrayDesign arrayDesign,
                                                QuantitationType quantitationType)

Specified by:

find in interface DesignElementDataVectorDao<RawExpressionDataVector>

find

public Collection<RawExpressionDataVector> find(Collection<CompositeSequence> designElements,
                                                QuantitationType quantitationType)

Specified by:

find in interface DesignElementDataVectorDao<RawExpressionDataVector>

findByExpressionExperiment

public Collection<RawExpressionDataVector> findByExpressionExperiment(ExpressionExperiment ee,
                                                                      QuantitationType quantitationType)

Description copied from interface: DesignElementDataVectorDao

Find expression vectors by ExpressionExperiment.

Specified by:

findByExpressionExperiment in interface DesignElementDataVectorDao<RawExpressionDataVector>

removeDataForCompositeSequence

public void removeDataForCompositeSequence(CompositeSequence compositeSequence)

Specified by:

removeDataForCompositeSequence in interface DesignElementDataVectorDao<RawExpressionDataVector>

removeDataForQuantitationType

public void removeDataForQuantitationType(QuantitationType quantitationType)

Specified by:

removeDataForQuantitationType in interface DesignElementDataVectorDao<RawExpressionDataVector>

find

public RawExpressionDataVector find(RawExpressionDataVector designElementDataVector)

Description copied from interface: BaseDao

Does a look up for the given entity in the persistent storage, usually looking for a specific identifier ( either id or a string property).

Specified by:

find in interface BaseDao<RawExpressionDataVector>

Overrides:

find in class AbstractDao<RawExpressionDataVector>

Parameters:

designElementDataVector - the entity to look for.

Returns:

an entity that was found in the persistent storage, or null if no such entity was found.