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org.biomage.BioAssayData
Class BioAssayMapping  

java.lang.Object
  org.biomage.Common.Extendable
      org.biomage.BioAssayData.BioAssayMapping

All Implemented Interfaces:

org.biomage.Interface.HasBioAssayMaps, org.biomage.Interface.HasPropertySets, java.io.Serializable

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public class BioAssayMapping

extends org.biomage.Common.Extendable

implements java.io.Serializable, org.biomage.Interface.HasBioAssayMaps

Container of the mappings of the input BioAssay dimensions to the output BioAssay dimension.

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Nested Class Summary

 

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

org.biomage.Interface.HasBioAssayMaps.BioAssayMaps_list

 

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

org.biomage.Interface.HasPropertySets.PropertySets_list

 

Field Summary
private  org.biomage.Interface.HasBioAssayMaps.BioAssayMaps_list	bioAssayMaps           The maps for the BioAssays.

 

Fields inherited from class org.biomage.Common.Extendable

 

Constructor Summary

BioAssayMapping()           Default constructor.

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

 

Method Summary
void	addToBioAssayMaps(BioAssayMap bioAssayMap)           Method to add BioAssayMap to BioAssayMaps_list
void	addToBioAssayMaps(int position, BioAssayMap bioAssayMap)           Method to add BioAssayMap at position to BioAssayMaps_list
org.biomage.Interface.HasBioAssayMaps.BioAssayMaps_list	getBioAssayMaps()           Get method for bioAssayMaps
BioAssayMap	getFromBioAssayMaps(int position)           Method to get BioAssayMap from BioAssayMaps_list
void	removeElementAtFromBioAssayMaps(int position)           Method to remove by position from BioAssayMaps_list
void	removeFromBioAssayMaps(BioAssayMap bioAssayMap)           Method to remove first BioAssayMap from BioAssayMaps_list
void	setBioAssayMaps(org.biomage.Interface.HasBioAssayMaps.BioAssayMaps_list bioAssayMaps)           Set method for bioAssayMaps
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.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

bioAssayMaps

private org.biomage.Interface.HasBioAssayMaps.BioAssayMaps_list bioAssayMaps

The maps for the BioAssays.

Constructor Detail

BioAssayMapping

public BioAssayMapping()

Default constructor.

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BioAssayMapping

public BioAssayMapping(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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setBioAssayMaps

public void setBioAssayMaps(org.biomage.Interface.HasBioAssayMaps.BioAssayMaps_list bioAssayMaps)

Set method for bioAssayMaps

Specified by:

setBioAssayMaps in interface org.biomage.Interface.HasBioAssayMaps

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getBioAssayMaps

public org.biomage.Interface.HasBioAssayMaps.BioAssayMaps_list getBioAssayMaps()

Get method for bioAssayMaps

Specified by:

getBioAssayMaps in interface org.biomage.Interface.HasBioAssayMaps

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addToBioAssayMaps

public void addToBioAssayMaps(BioAssayMap bioAssayMap)

Method to add BioAssayMap to BioAssayMaps_list

Specified by:

addToBioAssayMaps in interface org.biomage.Interface.HasBioAssayMaps

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addToBioAssayMaps

public void addToBioAssayMaps(int position,
                              BioAssayMap bioAssayMap)

Method to add BioAssayMap at position to BioAssayMaps_list

Specified by:

addToBioAssayMaps in interface org.biomage.Interface.HasBioAssayMaps

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getFromBioAssayMaps

public BioAssayMap getFromBioAssayMaps(int position)

Method to get BioAssayMap from BioAssayMaps_list

Specified by:

getFromBioAssayMaps in interface org.biomage.Interface.HasBioAssayMaps

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removeElementAtFromBioAssayMaps

public void removeElementAtFromBioAssayMaps(int position)

Method to remove by position from BioAssayMaps_list

Specified by:

removeElementAtFromBioAssayMaps in interface org.biomage.Interface.HasBioAssayMaps

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removeFromBioAssayMaps

public void removeFromBioAssayMaps(BioAssayMap bioAssayMap)

Method to remove first BioAssayMap from BioAssayMaps_list

Specified by:

removeFromBioAssayMaps in interface org.biomage.Interface.HasBioAssayMaps

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

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