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org.biomage.BioAssay
Class BioAssayTreatment  

java.lang.Object
  org.biomage.Common.Extendable
      org.biomage.Common.Describable
          org.biomage.Common.Identifiable
              org.biomage.BioEvent.BioEvent
                  org.biomage.BioAssay.BioAssayTreatment

All Implemented Interfaces:

org.biomage.Interface.HasAuditTrail, org.biomage.Interface.HasDescriptions, org.biomage.Interface.HasPhysicalBioAssay, org.biomage.Interface.HasPropertySets, org.biomage.Interface.HasProtocolApplications, org.biomage.Interface.HasSecurity, org.biomage.Interface.HasTarget, java.io.Serializable

Direct Known Subclasses:

ImageAcquisition

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public class BioAssayTreatment

extends org.biomage.BioEvent.BioEvent

implements java.io.Serializable, org.biomage.Interface.HasPhysicalBioAssay, org.biomage.Interface.HasTarget

The event which records the process by which PhysicalBioAssays are processed (typically washing, blocking, etc...).

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Nested Class Summary

 

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

org.biomage.Interface.HasProtocolApplications.ProtocolApplications_list

 

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

org.biomage.Interface.HasAuditTrail.AuditTrail_list

 

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

org.biomage.Interface.HasDescriptions.Descriptions_list

 

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

org.biomage.Interface.HasPropertySets.PropertySets_list

 

Field Summary
private  PhysicalBioAssay	physicalBioAssay           The set of treatments undergone by this PhysicalBioAssay.
private  PhysicalBioAssay	target           The PhysicalBioAssay that was treated.

 

Fields inherited from class org.biomage.BioEvent.BioEvent

 

Fields inherited from class org.biomage.Common.Identifiable

 

Fields inherited from class org.biomage.Common.Describable

 

Fields inherited from class org.biomage.Common.Extendable

 

Constructor Summary

BioAssayTreatment()           Default constructor.

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

 

Method Summary
PhysicalBioAssay	getPhysicalBioAssay()           Get method for physicalBioAssay
PhysicalBioAssay	getTarget()           Get method for target
void	setPhysicalBioAssay(PhysicalBioAssay physicalBioAssay)           Set method for physicalBioAssay
void	setTarget(PhysicalBioAssay target)           Set method for target
void	writeAssociations(java.io.Writer out)           writeAssociations
void	writeAttributes(java.io.Writer out)           writeAttributes
void	writeMAGEML(java.io.Writer out)           writeMAGEML

 

Methods inherited from class org.biomage.BioEvent.BioEvent

addToProtocolApplications, addToProtocolApplications, getFromProtocolApplications, getProtocolApplications, removeElementAtFromProtocolApplications, removeFromProtocolApplications, setProtocolApplications

 

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

physicalBioAssay

private PhysicalBioAssay physicalBioAssay

The set of treatments undergone by this PhysicalBioAssay.

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target

private PhysicalBioAssay target

The PhysicalBioAssay that was treated.

Constructor Detail

BioAssayTreatment

public BioAssayTreatment()

Default constructor.

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BioAssayTreatment

public BioAssayTreatment(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.

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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.

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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.

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setPhysicalBioAssay

public void setPhysicalBioAssay(PhysicalBioAssay physicalBioAssay)

Set method for physicalBioAssay

Specified by:

setPhysicalBioAssay in interface org.biomage.Interface.HasPhysicalBioAssay

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getPhysicalBioAssay

public PhysicalBioAssay getPhysicalBioAssay()

Get method for physicalBioAssay

Specified by:

getPhysicalBioAssay in interface org.biomage.Interface.HasPhysicalBioAssay

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setTarget

public void setTarget(PhysicalBioAssay target)

Set method for target

Specified by:

setTarget in interface org.biomage.Interface.HasTarget

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getTarget

public PhysicalBioAssay getTarget()

Get method for target

Specified by:

getTarget in interface org.biomage.Interface.HasTarget

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Overview  Package   Class  Use  Deprecated  Index
Home >> All >> org >> biomage >> [ BioAssay overview ]	PREV CLASS  NEXT CLASS
SUMMARY:  JAVADOC |  SOURCE |  DOWNLOAD | NESTED | FIELD | CONSTR | METHOD	DETAIL: FIELD | CONSTR | METHOD

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