Package ubic.gemma.model.expression.bioAssay

Class BioAssayValueObject

java.lang.Object

ubic.gemma.model.common.IdentifiableValueObject<BioAssay>

ubic.gemma.model.expression.bioAssay.BioAssayValueObject

All Implemented Interfaces:

Serializable, Identifiable

public class BioAssayValueObject
extends IdentifiableValueObject<BioAssay>

Author:

Paul

See Also:

Serialized Form

Field Summary

Fields inherited from class ubic.gemma.model.common.IdentifiableValueObject

id

Constructor Summary

Constructors

Constructor	Description
BioAssayValueObject()	Required when using the class as a spring bean.
BioAssayValueObject(Long id)
BioAssayValueObject(BioAssay bioAssay, boolean basic)
BioAssayValueObject(BioAssay bioAssay, boolean basic, boolean predictedOutlier)
BioAssayValueObject(BioAssay bioAssay, Map<Long,ArrayDesignValueObject> arrayDesignValueObjectsById, boolean basic)

Method Summary

Modifier and Type	Method	Description
static Collection<BioAssayValueObject>	convert2ValueObjects(Collection<BioAssay> bioAssays)
boolean	equals(Object obj)
DatabaseEntryValueObject	getAccession()
ArrayDesignValueObject	getArrayDesign()
String	getDescription()
String	getMetadata()
String	getName()
ArrayDesignValueObject	getOriginalPlatform()
Boolean	getPredictedOutlier()
Date	getProcessingDate()
BioMaterialValueObject	getSample()
Boolean	getSequencePairedReads()
Long	getSequenceReadCount()
Integer	getSequenceReadLength()
Boolean	getUserFlaggedOutlier()
int	hashCode()
boolean	isOutlier()
void	setAccession(DatabaseEntryValueObject accession)
void	setArrayDesign(ArrayDesignValueObject arrayDesign)
void	setDescription(String description)
void	setMetadata(String metadata)
void	setName(String name)
void	setOriginalPlatform(ArrayDesignValueObject originalPlatform)
void	setOutlier(boolean outlier)
void	setPredictedOutlier(Boolean predictedOutlier)
void	setProcessingDate(Date processingDate)
void	setSample(BioMaterialValueObject sample)
void	setSequencePairedReads(Boolean sequencePairedReads)
void	setSequenceReadCount(Long sequenceReadCount)
void	setSequenceReadLength(Integer sequenceReadLength)
void	setUserFlaggedOutlier(Boolean userFlaggedOutlier)
String	toString()

Methods inherited from class ubic.gemma.model.common.IdentifiableValueObject

getId, setId

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail

BioAssayValueObject

public BioAssayValueObject()

Required when using the class as a spring bean.

BioAssayValueObject

public BioAssayValueObject(BioAssay bioAssay,
                           @Nullable
                           Map<Long,ArrayDesignValueObject> arrayDesignValueObjectsById,
                           boolean basic)

Parameters:

arrayDesignValueObjectsById - pre-populated array design VOs by ID, or null to ignore and the VOs will be initialized via ArrayDesignValueObject(ArrayDesign)

BioAssayValueObject

public BioAssayValueObject(BioAssay bioAssay,
                           boolean basic)

BioAssayValueObject

public BioAssayValueObject(BioAssay bioAssay,
                           boolean basic,
                           boolean predictedOutlier)

BioAssayValueObject

public BioAssayValueObject(Long id)

Method Detail

convert2ValueObjects

public static Collection<BioAssayValueObject> convert2ValueObjects(Collection<BioAssay> bioAssays)

equals

public boolean equals(Object obj)

Overrides:

equals in class Object

getAccession

public DatabaseEntryValueObject getAccession()

getArrayDesign

public ArrayDesignValueObject getArrayDesign()

getDescription

public String getDescription()

getMetadata

public String getMetadata()

getName

public String getName()

getOriginalPlatform

public ArrayDesignValueObject getOriginalPlatform()

getPredictedOutlier

public Boolean getPredictedOutlier()

getProcessingDate

public Date getProcessingDate()

getSample

public BioMaterialValueObject getSample()

getSequencePairedReads

public Boolean getSequencePairedReads()

getSequenceReadCount

public Long getSequenceReadCount()

getSequenceReadLength

public Integer getSequenceReadLength()

getUserFlaggedOutlier

public Boolean getUserFlaggedOutlier()

hashCode

public int hashCode()

Overrides:

hashCode in class Object

isOutlier

public boolean isOutlier()

setAccession

public void setAccession(DatabaseEntryValueObject accession)

setArrayDesign

public void setArrayDesign(ArrayDesignValueObject arrayDesign)

setDescription

public void setDescription(String description)

setMetadata

public void setMetadata(String metadata)

setName

public void setName(String name)

setOriginalPlatform

public void setOriginalPlatform(ArrayDesignValueObject originalPlatform)

setOutlier

public void setOutlier(boolean outlier)

setPredictedOutlier

public void setPredictedOutlier(Boolean predictedOutlier)

setProcessingDate

public void setProcessingDate(Date processingDate)

setSample

public void setSample(BioMaterialValueObject sample)

setSequencePairedReads

public void setSequencePairedReads(Boolean sequencePairedReads)

setSequenceReadCount

public void setSequenceReadCount(Long sequenceReadCount)

setSequenceReadLength

public void setSequenceReadLength(Integer sequenceReadLength)

setUserFlaggedOutlier

public void setUserFlaggedOutlier(Boolean userFlaggedOutlier)

toString

public String toString()

Overrides:

toString in class IdentifiableValueObject<BioAssay>