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org.biomage.Common
Class Extendable  

java.lang.Object
  org.biomage.Common.Extendable

All Implemented Interfaces:

org.biomage.Interface.HasPropertySets, java.io.Serializable

Direct Known Subclasses:

Describable

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public abstract class Extendable

extends java.lang.Object

implements java.io.Serializable, org.biomage.Interface.HasPropertySets

Abstract class that specifies for subclasses an association to NameValueTypes. These can be used, for instance, to specify proprietary properties and in-house processing hints.

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Nested Class Summary

 

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

org.biomage.Interface.HasPropertySets.PropertySets_list

 

Field Summary
private  org.biomage.Interface.HasPropertySets.PropertySets_list	propertySets           Allows specification of name/value pairs.

 

Constructor Summary

Extendable()           Default constructor.

Extendable(org.xml.sax.Attributes atts)           Attribute constructor.

 

Method Summary
void	addToPropertySets(int position, NameValueType nameValueType)           Method to add NameValueType at position to PropertySets_list
void	addToPropertySets(NameValueType nameValueType)           Method to add NameValueType to PropertySets_list
NameValueType	getFromPropertySets(int position)           Method to get NameValueType from PropertySets_list
org.biomage.Interface.HasPropertySets.PropertySets_list	getPropertySets()           Get method for propertySets
void	removeElementAtFromPropertySets(int position)           Method to remove by position from PropertySets_list
void	removeFromPropertySets(NameValueType nameValueType)           Method to remove first NameValueType from PropertySets_list
void	setPropertySets(org.biomage.Interface.HasPropertySets.PropertySets_list propertySets)           Set method for propertySets
void	writeAssociations(java.io.Writer out)           writeAssociations
void	writeAttributes(java.io.Writer out)           writeAttributes
void	writeMAGEML(java.io.Writer out)           writeMAGEML

 

Methods inherited from class java.lang.Object

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

 

Field Detail

propertySets

private org.biomage.Interface.HasPropertySets.PropertySets_list propertySets

Allows specification of name/value pairs. Meant to primarily help in-house, pipeline processing of instances by providing a place for values that aren't part of the specification proper.

Constructor Detail

Extendable

public Extendable()

Default constructor.

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Extendable

public Extendable(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.

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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.

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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.

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setPropertySets

public void setPropertySets(org.biomage.Interface.HasPropertySets.PropertySets_list propertySets)

Set method for propertySets

Specified by:

setPropertySets in interface org.biomage.Interface.HasPropertySets

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getPropertySets

public org.biomage.Interface.HasPropertySets.PropertySets_list getPropertySets()

Get method for propertySets

Specified by:

getPropertySets in interface org.biomage.Interface.HasPropertySets

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addToPropertySets

public void addToPropertySets(NameValueType nameValueType)

Method to add NameValueType to PropertySets_list

Specified by:

addToPropertySets in interface org.biomage.Interface.HasPropertySets

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addToPropertySets

public void addToPropertySets(int position,
                              NameValueType nameValueType)

Method to add NameValueType at position to PropertySets_list

Specified by:

addToPropertySets in interface org.biomage.Interface.HasPropertySets

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getFromPropertySets

public NameValueType getFromPropertySets(int position)

Method to get NameValueType from PropertySets_list

Specified by:

getFromPropertySets in interface org.biomage.Interface.HasPropertySets

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removeElementAtFromPropertySets

public void removeElementAtFromPropertySets(int position)

Method to remove by position from PropertySets_list

Specified by:

removeElementAtFromPropertySets in interface org.biomage.Interface.HasPropertySets

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removeFromPropertySets

public void removeFromPropertySets(NameValueType nameValueType)

Method to remove first NameValueType from PropertySets_list

Specified by:

removeFromPropertySets in interface org.biomage.Interface.HasPropertySets

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