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org.biomage.QuantitationType
Class StandardQuantitationType  

java.lang.Object
  org.biomage.Common.Extendable
      org.biomage.Common.Describable
          org.biomage.Common.Identifiable
              org.biomage.QuantitationType.QuantitationType
                  org.biomage.QuantitationType.StandardQuantitationType

All Implemented Interfaces:

org.biomage.Interface.HasAuditTrail, org.biomage.Interface.HasChannel, org.biomage.Interface.HasConfidenceIndicators, org.biomage.Interface.HasDataType, org.biomage.Interface.HasDescriptions, org.biomage.Interface.HasPropertySets, org.biomage.Interface.HasScale, org.biomage.Interface.HasSecurity, java.io.Serializable

Direct Known Subclasses:

ConfidenceIndicator, DerivedSignal, MeasuredSignal, PresentAbsent, Ratio

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public abstract class StandardQuantitationType

extends QuantitationType

implements java.io.Serializable

Superclass for the named quantitation type. Useful for mapping to those languages that can use a fly-weight for processing the subclasses.

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Nested Class Summary

 

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

org.biomage.Interface.HasConfidenceIndicators.ConfidenceIndicators_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

 

Fields inherited from class org.biomage.QuantitationType.QuantitationType

isBackground

 

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

StandardQuantitationType()           Default constructor.

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

 

Method Summary
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.QuantitationType.QuantitationType

addToConfidenceIndicators, addToConfidenceIndicators, getChannel, getConfidenceIndicators, getDataType, getFromConfidenceIndicators, getIsBackground, getScale, removeElementAtFromConfidenceIndicators, removeFromConfidenceIndicators, setChannel, setConfidenceIndicators, setDataType, setIsBackground, setScale

 

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

 

Constructor Detail

StandardQuantitationType

public StandardQuantitationType()

Default constructor.

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StandardQuantitationType

public StandardQuantitationType(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 QuantitationType

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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.

Overrides:

writeAttributes in class QuantitationType

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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.

Overrides:

writeAssociations in class QuantitationType

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