org.ecoinformatics.seek.sms

Class AnnotationEngine

java.lang.Object

org.ecoinformatics.seek.sms.AnnotationEngine

public class AnnotationEngine
extends java.lang.Object

AnnotationEngine Interface { AnnotationEngine instance() Vector getDefaultConceptNames() void addActorAnnotation(String lsid, String conceptName) EntityTreeModel buildDefaultActorLibrary() Vector search(String classname) Vector search(String classname, boolean approx) }

Author:

berkley

Created:

February 17, 2005

Constructor Summary

Constructors

Modifier	Constructor and Description
protected	AnnotationEngine() Constructor

Method Summary

Modifier and Type	Method and Description
void	addActorAnnotation(java.lang.String lsid, java.lang.String conceptName) Annotate an actor (via the lsid) with a given ontology concept id
EntityTreeModel	buildDefaultActorLibrary() Constructs the default actor library that is loaded, e.g., when Kepler is started in graph mode.
java.util.Vector<java.lang.String>	getDefaultConceptNames() Not Implemented.
protected void	initialize() Reload the ontology and annotation information.
static AnnotationEngine	instance()
static void	main(java.lang.String[] args) The main program for the AnnotationEngine class for testing: prints out the annotations.
void	print() For testing... dumps out the annotations using n3 syntax.
java.util.Vector<NamedObj>	search(java.lang.String classname) search default case
java.util.Vector<NamedObj>	search(java.lang.String classname, boolean approx)

Methods inherited from class java.lang.Object

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

Constructor Detail

AnnotationEngine

protected AnnotationEngine()

Constructor

Method Detail

instance

public static AnnotationEngine instance()

Returns:

The unique instance of this class This must be called to create/obtain an instance of the engine.

print

public void print()

For testing... dumps out the annotations using n3 syntax.

initialize

protected void initialize()

Reload the ontology and annotation information. Eventually, should check if changes were made prior to loading.

getDefaultConceptNames

public java.util.Vector<java.lang.String> getDefaultConceptNames()

Not Implemented.

Returns:

The defaultConceptNames value

addActorAnnotation

public void addActorAnnotation(java.lang.String lsid,
                               java.lang.String conceptName)
                        throws java.lang.Exception

Annotate an actor (via the lsid) with a given ontology concept id

Parameters:

lsid - The feature to be added to the ActorAnnotation attribute

conceptName - The feature to be added to the ActorAnnotation attribute

Throws:

java.lang.Exception - Description of the Exception

buildDefaultActorLibrary

public EntityTreeModel buildDefaultActorLibrary()

Constructs the default actor library that is loaded, e.g., when Kepler is started in graph mode.

Parameters:

_libPane - Description of the Parameter

Returns:

Description of the Return Value

search

public java.util.Vector<NamedObj> search(java.lang.String classname)

search default case

Parameters:

classname - Description of the Parameter

Returns:

Description of the Return Value

search

public java.util.Vector<NamedObj> search(java.lang.String classname,
                                         boolean approx)

Parameters:

classname - the classname (as a term/keyword) to search for

approx - if true, find approximate term matches, and if false, do exact matches Searches the ontology matching the term and for matches, finds annotated items. For example, search("RichnessIndex") finds all actors that instantiate either the class named "RichnessIndex" or one of its subclasses.

Returns:

Description of the Return Value

main

public static void main(java.lang.String[] args)

The main program for the AnnotationEngine class for testing: prints out the annotations.

Parameters:

args - The command line arguments