org.biomage.BioAssayData
Class DesignElementTuple

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

public class DesignElementTuple
extends Extendable
implements java.io.Serializable, HasQuantitationTypeTuples

Transformed container to specify a DesignElement and QuantitationTypes for that Element.

See Also:
Serialized Form

Nested Class Summary
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasQuantitationTypeTuples
HasQuantitationTypeTuples.QuantitationTypeTuples_list
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasPropertySets
HasPropertySets.PropertySets_list
 
Field Summary
protected  DesignElement designElement
          The DesignElement associated with the value of the BioAssayDatum.
 
Fields inherited from class org.biomage.Common.Extendable
editable, id, securedElementId
 
Constructor Summary
DesignElementTuple()
          Default constructor.
DesignElementTuple(org.xml.sax.Attributes atts)
          Attribute constructor.
 
Method Summary
 void addToQuantitationTypeTuples(int position, QuantitationTypeTuple quantitationTypeTuple)
          Method to add QuantitationTypeTuple at position to QuantitationTypeTuples_list
 void addToQuantitationTypeTuples(QuantitationTypeTuple quantitationTypeTuple)
          Method to add QuantitationTypeTuple to QuantitationTypeTuples_list
 boolean emptyMAGEobject()
           
 DesignElement getDesignElement()
          Get method for designElement
 QuantitationTypeTuple getFromQuantitationTypeTuples(int position)
          Method to get QuantitationTypeTuple from QuantitationTypeTuples_list
 java.lang.String getModelClassName()
           
 HasQuantitationTypeTuples.QuantitationTypeTuples_list getQuantitationTypeTuples()
          Get method for quantitationTypeTuples
 void removeElementAtFromQuantitationTypeTuples(int position)
          Method to remove by position from QuantitationTypeTuples_list
 void removeFromQuantitationTypeTuples(QuantitationTypeTuple quantitationTypeTuple)
          Method to remove first QuantitationTypeTuple from QuantitationTypeTuples_list
 void setDesignElement(DesignElement designElement)
          Set method for designElement
 void setQuantitationTypeTuples(HasQuantitationTypeTuples.QuantitationTypeTuples_list quantitationTypeTuples)
          Set method for quantitationTypeTuples
 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

designElement

protected DesignElement designElement
The DesignElement associated with the value of the BioAssayDatum.

Constructor Detail

DesignElementTuple

public DesignElementTuple()
Default constructor.


DesignElementTuple

public DesignElementTuple(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

setDesignElement

public void setDesignElement(DesignElement designElement)
Set method for designElement

Parameters:
value - to set

getDesignElement

public DesignElement getDesignElement()
Get method for designElement

Returns:
value of the attribute

setQuantitationTypeTuples

public void setQuantitationTypeTuples(HasQuantitationTypeTuples.QuantitationTypeTuples_list quantitationTypeTuples)
Set method for quantitationTypeTuples

Specified by:
setQuantitationTypeTuples in interface HasQuantitationTypeTuples
Parameters:
value - to set

getQuantitationTypeTuples

public HasQuantitationTypeTuples.QuantitationTypeTuples_list getQuantitationTypeTuples()
Get method for quantitationTypeTuples

Specified by:
getQuantitationTypeTuples in interface HasQuantitationTypeTuples
Returns:
value of the attribute

addToQuantitationTypeTuples

public void addToQuantitationTypeTuples(QuantitationTypeTuple quantitationTypeTuple)
Method to add QuantitationTypeTuple to QuantitationTypeTuples_list

Specified by:
addToQuantitationTypeTuples in interface HasQuantitationTypeTuples

addToQuantitationTypeTuples

public void addToQuantitationTypeTuples(int position,
                                        QuantitationTypeTuple quantitationTypeTuple)
Method to add QuantitationTypeTuple at position to QuantitationTypeTuples_list

Specified by:
addToQuantitationTypeTuples in interface HasQuantitationTypeTuples

getFromQuantitationTypeTuples

public QuantitationTypeTuple getFromQuantitationTypeTuples(int position)
Method to get QuantitationTypeTuple from QuantitationTypeTuples_list

Specified by:
getFromQuantitationTypeTuples in interface HasQuantitationTypeTuples

removeElementAtFromQuantitationTypeTuples

public void removeElementAtFromQuantitationTypeTuples(int position)
Method to remove by position from QuantitationTypeTuples_list

Specified by:
removeElementAtFromQuantitationTypeTuples in interface HasQuantitationTypeTuples

removeFromQuantitationTypeTuples

public void removeFromQuantitationTypeTuples(QuantitationTypeTuple quantitationTypeTuple)
Method to remove first QuantitationTypeTuple from QuantitationTypeTuples_list

Specified by:
removeFromQuantitationTypeTuples in interface HasQuantitationTypeTuples