org.biojava.bio

Class AnnotationChanger

java.lang.Object

org.biojava.utils.AbstractChangeable

org.biojava.bio.AbstractAnnotation

org.biojava.bio.AnnotationChanger

All Implemented Interfaces:

Serializable, Annotation, Changeable

public class AnnotationChanger
extends AbstractAnnotation

AnnotationChanger remaps the values of an Annotation to new values specified by a ValueChanger. This will modify the values associated with properties, but not the property names. For writing light-weigth adaptors to project one type of Annotation to another using a ChangeTable.

Since:

1.3

Author:

Matthew Pocock

See Also:

Serialized Form

Field Summary

Fields inherited from interface org.biojava.bio.Annotation

EMPTY_ANNOTATION, PROPERTY

Constructor Summary

Constructors

Constructor and Description
AnnotationChanger(Annotation wrapped, ChangeTable changer) Creates a new AnnotationChanger using the specified ValueChanger to remap its values.

Method Summary

Modifier and Type	Method and Description
ChangeTable	getChanger() getMapper returns the ValueChanger being used to remap the Annotation.
Map	getProperties() getProperties returns the mapped contents of the underlying Annotation as a Map.
Annotation	getWrapped() getWrapped returns the Annotation being remapped.
boolean	propertiesAllocated() propertiesAllocated is a convenience method to see if we have allocated the properties Map.

Methods inherited from class org.biojava.bio.AbstractAnnotation

asMap, containsProperty, equals, getProperty, hashCode, keys, removeProperty, setProperty, toString

Methods inherited from class org.biojava.utils.AbstractChangeable

addChangeListener, addChangeListener, generateChangeSupport, getChangeSupport, hasListeners, hasListeners, isUnchanging, removeChangeListener, removeChangeListener

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface org.biojava.utils.Changeable

addChangeListener, addChangeListener, isUnchanging, removeChangeListener, removeChangeListener

Constructor Detail

AnnotationChanger

public AnnotationChanger(Annotation wrapped,
                         ChangeTable changer)

Creates a new AnnotationChanger using the specified ValueChanger to remap its values.

Parameters:

wrapped - an Annotation.

changer - a ValueChanger.

Method Detail

getWrapped

public Annotation getWrapped()

getWrapped returns the Annotation being remapped.

Returns:

an Annotation.

getChanger

public ChangeTable getChanger()

getMapper returns the ValueChanger being used to remap the Annotation.

Returns:

a ValueChanger.

getProperties

public Map getProperties()

getProperties returns the mapped contents of the underlying Annotation as a Map.

Specified by:

getProperties in class AbstractAnnotation

Returns:

a Map.

propertiesAllocated

public boolean propertiesAllocated()

propertiesAllocated is a convenience method to see if we have allocated the properties Map.

Specified by:

propertiesAllocated in class AbstractAnnotation

Returns:

a boolean true if the properties have been allocated, false otherwise.