org.biomage.Common
Class Identifiable

java.lang.Object
  |
  +--org.biomage.Common.Extendable
        |
        +--org.biomage.Common.Describable
              |
              +--org.biomage.Common.Identifiable

All Implemented Interfaces:

HasAuditTrail, HasDescriptions, HasPropertySets, HasSecurity, java.io.Serializable

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 inherited from class org.biomage.Interface.HasAuditTrail

HasAuditTrail.AuditTrail_list

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

HasDescriptions.Descriptions_list

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

HasPropertySets.PropertySets_list

Field Summary

Fields inherited from class org.biomage.Common.Describable

auditTrail, descriptions, security

Fields inherited from class org.biomage.Common.Extendable

propertySets

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	getName() Get method for name
void	setIdentifier(java.lang.String identifier) Set method for identifier
void	setName(java.lang.String name) Set method for name
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, getFromPropertySets, getPropertySets, removeElementAtFromPropertySets, removeFromPropertySets, setPropertySets

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, 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

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 Describable

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

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

java.io.IOException

setIdentifier

public void setIdentifier(java.lang.String identifier)

Set method for identifier

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

getName

public java.lang.String getName()

Get method for name

Returns:

value of the attribute