Package ubic.gemma.web.controller.persistence

Class SessionListManagerImpl

java.lang.Object

ubic.gemma.web.controller.persistence.SessionListManagerImpl

All Implemented Interfaces:

SessionListManager

@Component
public class SessionListManagerImpl
extends Object
implements SessionListManager

Author:

thea

Constructor Summary

Constructors

Constructor	Description
SessionListManagerImpl()

Method Summary

Modifier and Type	Method	Description
ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject	addExperimentSet(ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject eesvo)
ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject	addExperimentSet(ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject eesvo, boolean modified)
ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject	addGeneSet(ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject gsvo)
ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject	addGeneSet(ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject gsvo, boolean modified)
Collection<ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject>	getAllExperimentSets()
Collection<ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject>	getAllGeneSets()
Collection<ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject>	getAllGeneSets(Long taxonId)
Collection<Long>	getExperimentIdsInSet(Long id)
ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject	getExperimentSetById(Long id)	Get the session-bound group using the group's id
Collection<ubic.gemma.model.expression.experiment.ExpressionExperimentDetailsValueObject>	getExperimentsInSet(Long id)
ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject	getGeneSetById(Long id)	Get the session-bound group using the group's id
Collection<ubic.gemma.model.genome.gene.GeneValueObject>	getGenesInGroup(Long groupId)	AJAX If the current user has access to given gene group will return the gene ids in the gene group
Collection<ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject>	getModifiedExperimentSets()
Collection<ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject>	getModifiedExperimentSets(Long taxonId)
Collection<ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject>	getModifiedGeneSets()
Collection<ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject>	getModifiedGeneSets(Long taxonId)
Long	incrementAndGetLargestExperimentSetSessionId()
Long	incrementAndGetLargestGeneSetSessionId()
void	removeExperimentSet(ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject eesvo)
void	removeGeneSet(ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject gsvo)
void	updateExperimentSet(ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject eesvo)
void	updateGeneSet(ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject gsvo)

Methods inherited from class java.lang.Object

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

Constructor Details

SessionListManagerImpl

public SessionListManagerImpl()

Method Details

addExperimentSet

public ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject addExperimentSet(ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject eesvo)

Specified by:

addExperimentSet in interface SessionListManager

addExperimentSet

public ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject addExperimentSet(ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject eesvo,
 boolean modified)

Specified by:

addExperimentSet in interface SessionListManager

addGeneSet

public ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject addGeneSet(ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject gsvo)

Specified by:

addGeneSet in interface SessionListManager

addGeneSet

public ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject addGeneSet(ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject gsvo,
 boolean modified)

Specified by:

addGeneSet in interface SessionListManager

getAllExperimentSets

public Collection<ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject> getAllExperimentSets()

Specified by:

getAllExperimentSets in interface SessionListManager

getAllGeneSets

public Collection<ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject> getAllGeneSets()

Specified by:

getAllGeneSets in interface SessionListManager

getAllGeneSets

public Collection<ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject> getAllGeneSets(Long taxonId)

Specified by:

getAllGeneSets in interface SessionListManager

getExperimentIdsInSet

public Collection<Long> getExperimentIdsInSet(Long id)

Specified by:

getExperimentIdsInSet in interface SessionListManager

getExperimentSetById

public ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject getExperimentSetById(Long id)

Description copied from interface: SessionListManager

Get the session-bound group using the group's id

Specified by:

getExperimentSetById in interface SessionListManager

getExperimentsInSet

public Collection<ubic.gemma.model.expression.experiment.ExpressionExperimentDetailsValueObject> getExperimentsInSet(Long id)

Specified by:

getExperimentsInSet in interface SessionListManager

getGeneSetById

public ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject getGeneSetById(Long id)

Description copied from interface: SessionListManager

Get the session-bound group using the group's id

Specified by:

getGeneSetById in interface SessionListManager

getGenesInGroup

public Collection<ubic.gemma.model.genome.gene.GeneValueObject> getGenesInGroup(Long groupId)

Description copied from interface: SessionListManager

AJAX If the current user has access to given gene group will return the gene ids in the gene group

Specified by:

getGenesInGroup in interface SessionListManager

getModifiedExperimentSets

public Collection<ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject> getModifiedExperimentSets()

Specified by:

getModifiedExperimentSets in interface SessionListManager

getModifiedExperimentSets

public Collection<ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject> getModifiedExperimentSets(Long taxonId)

Specified by:

getModifiedExperimentSets in interface SessionListManager

getModifiedGeneSets

public Collection<ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject> getModifiedGeneSets()

Specified by:

getModifiedGeneSets in interface SessionListManager

getModifiedGeneSets

public Collection<ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject> getModifiedGeneSets(Long taxonId)

Specified by:

getModifiedGeneSets in interface SessionListManager

incrementAndGetLargestExperimentSetSessionId

public Long incrementAndGetLargestExperimentSetSessionId()

Specified by:

incrementAndGetLargestExperimentSetSessionId in interface SessionListManager

incrementAndGetLargestGeneSetSessionId

public Long incrementAndGetLargestGeneSetSessionId()

Specified by:

incrementAndGetLargestGeneSetSessionId in interface SessionListManager

removeExperimentSet

public void removeExperimentSet(ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject eesvo)

Specified by:

removeExperimentSet in interface SessionListManager

removeGeneSet

public void removeGeneSet(ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject gsvo)

Specified by:

removeGeneSet in interface SessionListManager

updateExperimentSet

public void updateExperimentSet(ubic.gemma.model.expression.experiment.SessionBoundExpressionExperimentSetValueObject eesvo)

Specified by:

updateExperimentSet in interface SessionListManager

updateGeneSet

public void updateGeneSet(ubic.gemma.model.genome.gene.SessionBoundGeneSetValueObject gsvo)

Specified by:

updateGeneSet in interface SessionListManager