org.biomage.BioAssayData
Class DerivedBioAssayData

java.lang.Object
  |
  +--org.biomage.Common.Extendable
        |
        +--org.biomage.Common.Describable
              |
              +--org.biomage.Common.Identifiable
                    |
                    +--org.biomage.BioAssayData.BioAssayData
                          |
                          +--org.biomage.BioAssayData.DerivedBioAssayData

All Implemented Interfaces:

HasAuditTrail, HasBioAssayDimension, HasBioDataValues, HasDescriptions, HasDesignElementDimension, HasProducerTransformation, HasPropertySets, HasQuantitationTypeDimension, HasSecurity, HasSummaryStatistics, java.io.Serializable

public class DerivedBioAssayData

extends BioAssayData

implements java.io.Serializable, HasProducerTransformation

The output of a transformation event.

See Also:

Serialized Form

Nested Class Summary

Nested classes inherited from class org.biomage.Interface.HasSummaryStatistics

HasSummaryStatistics.SummaryStatistics_list

Nested classes inherited from class org.biomage.Interface.HasAuditTrail

HasAuditTrail.AuditTrail_list

Nested classes inherited from class org.biomage.Interface.HasDescriptions

HasDescriptions.Descriptions_list

Nested classes inherited from class org.biomage.Interface.HasPropertySets

HasPropertySets.PropertySets_list

Field Summary

protected Transformation

producerTransformation The association between the DerivedBioAssayData and the Transformation event that produced it.

Fields inherited from class org.biomage.BioAssayData.BioAssayData

bioAssayDimension, bioDataValues, designElementDimension, quantitationTypeDimension, summaryStatistics

Fields inherited from class org.biomage.Common.Describable

auditTrail, descriptions, security

Fields inherited from class org.biomage.Common.Extendable

propertySets

Constructor Summary

DerivedBioAssayData()
Default constructor.

DerivedBioAssayData(org.xml.sax.Attributes atts)
Attribute constructor.

Method Summary

Transformation	getProducerTransformation() Get method for producerTransformation
void	setProducerTransformation(Transformation producerTransformation) Set method for producerTransformation
void	writeAssociations(java.io.Writer out) writeAssociations This method is responsible for assembling the association data into XML.
void	writeAttributes(java.io.Writer out) writeAttributes This method is responsible for assembling the attribute data into XML.
void	writeMAGEML(java.io.Writer out) writeMAGEML This method is responsible for assembling the attribute and association data into XML.

Methods inherited from class org.biomage.BioAssayData.BioAssayData

addToSummaryStatistics, addToSummaryStatistics, getBioAssayDimension, getBioDataValues, getDesignElementDimension, getFromSummaryStatistics, getQuantitationTypeDimension, getSummaryStatistics, removeElementAtFromSummaryStatistics, removeFromSummaryStatistics, setBioAssayDimension, setBioDataValues, setDesignElementDimension, setQuantitationTypeDimension, setSummaryStatistics

Methods inherited from class org.biomage.Common.Identifiable

getIdentifier, getName, setIdentifier, setName

Methods inherited from class org.biomage.Common.Describable

addToAuditTrail, addToAuditTrail, addToDescriptions, addToDescriptions, getAuditTrail, getDescriptions, getFromAuditTrail, getFromDescriptions, getSecurity, removeElementAtFromAuditTrail, removeElementAtFromDescriptions, removeFromAuditTrail, removeFromDescriptions, setAuditTrail, setDescriptions, setSecurity

Methods inherited from class org.biomage.Common.Extendable

addToPropertySets, addToPropertySets, getFromPropertySets, getPropertySets, removeElementAtFromPropertySets, removeFromPropertySets, setPropertySets

Methods inherited from class java.lang.Object

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

Field Detail

producerTransformation

protected Transformation producerTransformation

The association between the DerivedBioAssayData and the Transformation event that produced it.

Constructor Detail

DerivedBioAssayData

public DerivedBioAssayData()

Default constructor.

DerivedBioAssayData

public DerivedBioAssayData(org.xml.sax.Attributes atts)

Attribute constructor. Looks up the attributes in the parameter and casts them from strings appropriately

Method Detail

writeMAGEML

public void writeMAGEML(java.io.Writer out)
                 throws java.io.IOException

writeMAGEML This method is responsible for assembling the attribute and association data into XML. It creates the object tag and then calls the writeAttributes and writeAssociation methods.

Overrides:

writeMAGEML in class BioAssayData

java.io.IOException

writeAttributes

public void writeAttributes(java.io.Writer out)
                     throws java.io.IOException

writeAttributes This method is responsible for assembling the attribute data into XML. It calls the super method to write out all attributes of this class and it's ancestors.

Overrides:

writeAttributes in class BioAssayData

java.io.IOException

writeAssociations

public void writeAssociations(java.io.Writer out)
                       throws java.io.IOException

writeAssociations This method is responsible for assembling the association data into XML. It calls the super method to write out all associations of this class's ancestors.

Overrides:

writeAssociations in class BioAssayData

java.io.IOException

setProducerTransformation

public void setProducerTransformation(Transformation producerTransformation)

Set method for producerTransformation

Specified by:

setProducerTransformation in interface HasProducerTransformation

getProducerTransformation

public Transformation getProducerTransformation()

Get method for producerTransformation

Specified by:

getProducerTransformation in interface HasProducerTransformation

Returns:

value of the attribute