org.biomage.Common
Class Identifiable

java.lang.Object
  extended by org.biomage.Common.Extendable
      extended by org.biomage.Common.Describable
          extended by org.biomage.Common.Identifiable
All Implemented Interfaces:
SecuredElementItf, java.io.Serializable, HasAuditTrail, HasDescriptions, HasPropertySets, HasSecurity
Direct Known Subclasses:
Array, ArrayDesign, ArrayGroup, ArrayManufacture, BioAssay, BioAssayData, BioAssayDataCluster, BioAssayDimension, BioEvent, BioMaterial, BioSequence, Channel, Compound, Contact, Database, DesignElement, DesignElementDimension, DesignElementGroup, Experiment, ExperimentalFactor, FactorValue, Image, Parameter, Parameterizable, QuantitationType, QuantitationTypeDimension, Security, SecurityGroup, Zone

public abstract class Identifiable
extends Describable
implements java.io.Serializable

An Identifiable class is one that has an unambiguous reference within the scope. It also has a potentially ambiguous name.

See Also:
Serialized Form

Nested Class Summary
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasAuditTrail
HasAuditTrail.AuditTrail_list
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasDescriptions
HasDescriptions.Descriptions_list
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasPropertySets
HasPropertySets.PropertySets_list
 
Field Summary
 
Fields inherited from class org.biomage.Common.Describable
security
 
Fields inherited from class org.biomage.Common.Extendable
editable, id, securedElementId
 
Constructor Summary
Identifiable()
          Default constructor.
Identifiable(org.xml.sax.Attributes atts)
          Attribute constructor.
 
Method Summary
 java.lang.String getIdentifier()
          Get method for identifier
 java.lang.String getModelClassName()
           
 java.lang.String getName()
          Get method for name
 void setAttributes(org.xml.sax.Attributes atts)
           
 void setIdentifier(java.lang.String identifier)
          Set method for identifier
 void setName(java.lang.String name)
          Set method for name
 java.lang.String toString()
           
 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.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, equals, getFromPropertySets, getId, getIsEditable, getPropertySets, getSecuredElementId, isEditable, removeElementAtFromPropertySets, removeFromPropertySets, setId, setIsEditable, setPropertySets, setSecuredElementId
 
Methods inherited from class java.lang.Object
clone, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Constructor Detail

Identifiable

public Identifiable()
Default constructor.


Identifiable

public Identifiable(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

setAttributes

public void setAttributes(org.xml.sax.Attributes atts)
Overrides:
setAttributes in class Describable

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 Describable
Throws:
java.io.IOException

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 Describable
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 Describable
Throws:
java.io.IOException

setIdentifier

public void setIdentifier(java.lang.String identifier)
Set method for identifier

Parameters:
value - to set

getIdentifier

public java.lang.String getIdentifier()
Get method for identifier

Returns:
value of the attribute

setName

public void setName(java.lang.String name)
Set method for name

Parameters:
value - to set

getName

public java.lang.String getName()
Get method for name

Returns:
value of the attribute

getModelClassName

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

toString

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