org.biomage.BioAssayData
Class QuantitationTypeMapping

java.lang.Object
  extended by org.biomage.Common.Extendable
      extended by org.biomage.BioAssayData.QuantitationTypeMapping
All Implemented Interfaces:
SecuredElementItf, java.io.Serializable, HasPropertySets, HasQuantitationTypeMaps

public class QuantitationTypeMapping
extends Extendable
implements java.io.Serializable, HasQuantitationTypeMaps

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

See Also:
Serialized Form

Nested Class Summary
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasQuantitationTypeMaps
HasQuantitationTypeMaps.QuantitationTypeMaps_list
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasPropertySets
HasPropertySets.PropertySets_list
 
Field Summary
protected  java.util.List quantitationTypeMaps
          The maps for the QuantitationTypes.
 
Fields inherited from class org.biomage.Common.Extendable
editable, id, securedElementId
 
Constructor Summary
QuantitationTypeMapping()
          Default constructor.
QuantitationTypeMapping(org.xml.sax.Attributes atts)
          Attribute constructor.
 
Method Summary
 void addToQuantitationTypeMaps(int position, QuantitationTypeMap quantitationTypeMap)
          Method to add QuantitationTypeMap at position to QuantitationTypeMaps_list
 void addToQuantitationTypeMaps(QuantitationTypeMap quantitationTypeMap)
          Method to add QuantitationTypeMap to QuantitationTypeMaps_list
 boolean emptyMAGEobject()
           
 QuantitationTypeMap getFromQuantitationTypeMaps(int position)
          Method to get QuantitationTypeMap from QuantitationTypeMaps_list
 java.lang.String getModelClassName()
           
 HasQuantitationTypeMaps.QuantitationTypeMaps_list getQuantitationTypeMaps()
          Get method for quantitationTypeMaps
 void removeElementAtFromQuantitationTypeMaps(int position)
          Method to remove by position from QuantitationTypeMaps_list
 void removeFromQuantitationTypeMaps(QuantitationTypeMap quantitationTypeMap)
          Method to remove first QuantitationTypeMap from QuantitationTypeMaps_list
 void setQuantitationTypeMaps(HasQuantitationTypeMaps.QuantitationTypeMaps_list quantitationTypeMaps)
          Set method for quantitationTypeMaps
 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.Common.Extendable
addToPropertySets, addToPropertySets, equals, getFromPropertySets, getId, getIsEditable, getPropertySets, getSecuredElementId, isEditable, removeElementAtFromPropertySets, removeFromPropertySets, setAttributes, setId, setIsEditable, setPropertySets, setSecuredElementId, toString
 
Methods inherited from class java.lang.Object
clone, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Field Detail

quantitationTypeMaps

protected java.util.List quantitationTypeMaps
The maps for the QuantitationTypes.

Constructor Detail

QuantitationTypeMapping

public QuantitationTypeMapping()
Default constructor.


QuantitationTypeMapping

public QuantitationTypeMapping(org.xml.sax.Attributes atts)
Attribute constructor. Looks up the attributes in the parameter and casts them from strings appropriately

Parameters:
atts: - the attribute list.
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 Extendable
Throws:
java.io.IOException

emptyMAGEobject

public boolean emptyMAGEobject()

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 Extendable
Throws:
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 Extendable
Throws:
java.io.IOException

getModelClassName

public java.lang.String getModelClassName()
Overrides:
getModelClassName in class Extendable

setQuantitationTypeMaps

public void setQuantitationTypeMaps(HasQuantitationTypeMaps.QuantitationTypeMaps_list quantitationTypeMaps)
Set method for quantitationTypeMaps

Specified by:
setQuantitationTypeMaps in interface HasQuantitationTypeMaps
Parameters:
value - to set

getQuantitationTypeMaps

public HasQuantitationTypeMaps.QuantitationTypeMaps_list getQuantitationTypeMaps()
Get method for quantitationTypeMaps

Specified by:
getQuantitationTypeMaps in interface HasQuantitationTypeMaps
Returns:
value of the attribute

addToQuantitationTypeMaps

public void addToQuantitationTypeMaps(QuantitationTypeMap quantitationTypeMap)
Method to add QuantitationTypeMap to QuantitationTypeMaps_list

Specified by:
addToQuantitationTypeMaps in interface HasQuantitationTypeMaps

addToQuantitationTypeMaps

public void addToQuantitationTypeMaps(int position,
                                      QuantitationTypeMap quantitationTypeMap)
Method to add QuantitationTypeMap at position to QuantitationTypeMaps_list

Specified by:
addToQuantitationTypeMaps in interface HasQuantitationTypeMaps

getFromQuantitationTypeMaps

public QuantitationTypeMap getFromQuantitationTypeMaps(int position)
Method to get QuantitationTypeMap from QuantitationTypeMaps_list

Specified by:
getFromQuantitationTypeMaps in interface HasQuantitationTypeMaps

removeElementAtFromQuantitationTypeMaps

public void removeElementAtFromQuantitationTypeMaps(int position)
Method to remove by position from QuantitationTypeMaps_list

Specified by:
removeElementAtFromQuantitationTypeMaps in interface HasQuantitationTypeMaps

removeFromQuantitationTypeMaps

public void removeFromQuantitationTypeMaps(QuantitationTypeMap quantitationTypeMap)
Method to remove first QuantitationTypeMap from QuantitationTypeMaps_list

Specified by:
removeFromQuantitationTypeMaps in interface HasQuantitationTypeMaps