org.biomage.BioAssayData
Class DataExternal

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

public class DataExternal
extends Extendable
implements java.io.Serializable

Transformed class to associate external data to the BioAssayDataCube

See Also:
Serialized Form

Nested Class Summary
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasPropertySets
HasPropertySets.PropertySets_list
 
Field Summary
 
Fields inherited from class org.biomage.Common.Extendable
editable, id, securedElementId
 
Constructor Summary
DataExternal()
          Default constructor.
DataExternal(org.xml.sax.Attributes atts)
          Attribute constructor.
 
Method Summary
 boolean emptyMAGEobject()
           
 java.lang.String getDataFormat()
          Get method for dataFormat
 java.lang.String getDataFormatInfoURI()
          Get method for dataFormatInfoURI
 java.lang.String getFilenameURI()
          Get method for filenameURI
 java.lang.String getModelClassName()
           
 void setDataFormat(java.lang.String dataFormat)
          Set method for dataFormat
 void setDataFormatInfoURI(java.lang.String dataFormatInfoURI)
          Set method for dataFormatInfoURI
 void setFilenameURI(java.lang.String filenameURI)
          Set method for filenameURI
 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
 

Constructor Detail

DataExternal

public DataExternal()
Default constructor.


DataExternal

public DataExternal(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

setDataFormat

public void setDataFormat(java.lang.String dataFormat)
Set method for dataFormat

Parameters:
value - to set

getDataFormat

public java.lang.String getDataFormat()
Get method for dataFormat

Returns:
value of the attribute

setDataFormatInfoURI

public void setDataFormatInfoURI(java.lang.String dataFormatInfoURI)
Set method for dataFormatInfoURI

Parameters:
value - to set

getDataFormatInfoURI

public java.lang.String getDataFormatInfoURI()
Get method for dataFormatInfoURI

Returns:
value of the attribute

setFilenameURI

public void setFilenameURI(java.lang.String filenameURI)
Set method for filenameURI

Parameters:
value - to set

getFilenameURI

public java.lang.String getFilenameURI()
Get method for filenameURI

Returns:
value of the attribute

getModelClassName

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