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A selection of processing resources commonly used to extend ANNIE
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/*
* STreeNode.java
*
* Copyright (c) 1995-2012, The University of Sheffield. See the file
* COPYRIGHT.txt in the software or at http://gate.ac.uk/gate/COPYRIGHT.txt
*
* This file is part of GATE (see http://gate.ac.uk/), and is free
* software, licenced under the GNU Library General Public License,
* Version 2, June 1991 (in the distribution as file licence.html,
* and also available at http://gate.ac.uk/gate/licence.html).
*
* Kalina Bontcheva, 07/08/2001
*
* $Id: STreeNode.java 19184 2016-04-02 14:42:05Z markagreenwood $
*/
package gate.gui;
import gate.Annotation;
import gate.AnnotationSet;
import gate.Document;
import gate.Factory;
import gate.FeatureMap;
import gate.util.InvalidOffsetException;
import gate.util.Out;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.Iterator;
import java.util.List;
import java.util.Map;
import java.util.concurrent.atomic.AtomicInteger;
import javax.swing.tree.DefaultMutableTreeNode;
@SuppressWarnings("serial")
public class STreeNode extends DefaultMutableTreeNode {
private static final String ADDEDSET = "TreeViewerTempAdded";
private static final String REMOVEDSET = "TreeViewerTempRemoved";
static final AtomicInteger nextID = new AtomicInteger(0);
int level; // level in the syntax tree
int nodeID; //ID of the node
long start, end; //the start and end nodes for this annotation
Annotation annot; //the annotation that's created during import/export
//not to be used otherwise. During import span is set to
//be the same as the annotation span. During export the
//annotation span is set to be the same as the span.
public STreeNode(Annotation annot) {
level = -1;
nodeID = nextID.getAndIncrement();
//span = annot.getSpans().getElementAt(0);
//get the first span, there should be no others
this.annot = annot;
this.start = annot.getStartNode().getOffset().longValue();
this.end = annot.getEndNode().getOffset().longValue();
}// public STreeNode(Annotation annot)
public STreeNode(long start, long end) {
level = -1;
nodeID = nextID.getAndIncrement();
this.start = start;
this.end = end;
}// public STreeNode(int start, int end)
public STreeNode() {
level = -1;
nodeID = nextID.getAndIncrement();
start = 0;
end = 0;
}// public STreeNode()
@Override
public int getLevel() {
return level;
}// public int getLevel()
public void setLevel(long level) {
this.level = (int) level;
}// public void setLevel(int level)
public void setLevel(int level) {
this.level = level;
}// public void setLevel(int level)
public int getID() {
return nodeID;
}// public int getID()
public long getStart() {
return start;
}// public int getStart()
public void setStart(long start) {
this.start = start;
}// public void setStart(int start)
public long getEnd() {
return end;
}// public int getEnd()
public void setEnd(long end) {
this.end = end;
}// public void setEnd(int end)
/**
* This also sets the span to match the annotation span!
*/
public void setAnnotation(Annotation annot) {
this.annot = annot;
this.start = annot.getStartNode().getOffset().longValue();
this.end = annot.getEndNode().getOffset().longValue();
}// public void setAnnotation(Annotation annot)
public Annotation getAnnotation() {
return annot;
}// public Annotation getAnnotation()
public void disconnectChildren() {
for (Iterator i = this.children.iterator(); i.hasNext(); )
((STreeNode) i.next()).setParent(null);
this.children.clear();
}// public void disconnectChildren()
/**
* Creates an annotation of the given type. If the children don't have their
* annotation objects created, it creates them and assigns the pointers.
* Expects the text string relative to which all offsets were created!
*/
public boolean createAnnotation(Document doc, String type,
String text, long utteranceOffset) {
boolean created = false;
if (annot != null )
return false;
//no document, so cannot add annotations
if (doc == null)
return false;
// check if it has children. If it hasn't then it shouldn't have an
// annotation because all our leaf nodes are actually just words
// from the text (e.g. "this", "that"). Their categories are always
// encoded as non-terminal nodes.
if ( ! this.getAllowsChildren())
return false;
FeatureMap attribs = Factory.newFeatureMap();
// the text spanned by the annotation is stored as the userObject of the
// tree node
// comes from the default Swing tree node
List consists = new ArrayList();
Long lStart = new Long(start), lEnd = new Long(end);
// try {
// attribs.put("text",
// doc.getContent().getContent(lStart, lEnd).toString());
// } catch (InvalidOffsetException ex) {
// throw new RuntimeException(ex.getMessage());
// }
attribs.put("text",
text.substring( (int) (start - utteranceOffset),
(int) (end - utteranceOffset) )
);
attribs.put("cat", this.getUserObject());
attribs.put("consists", consists);
// children comes from DefaultMutableTreeNode
for (Iterator i = children.iterator(); i.hasNext(); ) {
STreeNode child = (STreeNode) i.next();
if (child.getAnnotation() == null) {
if (child.getAllowsChildren())
if (createAnnotation(doc, type, text, utteranceOffset))
consists.add(child.getAnnotation().getId());
} else
consists.add(child.getAnnotation().getId());
}
//!!! Need to account for the name of the Annot Set
AnnotationSet theSet = doc.getAnnotations(ADDEDSET);
try {
Integer Id = theSet.add(lStart, lEnd, type, attribs);
this.annot = theSet.get(Id);
created = true;
} catch (InvalidOffsetException ex) {
Out.println("Invalid annotation offsets: "
+ start + " and/or " + end);
created = false;
}
return created;
}// public boolean createAnnotation
/**
* Transfers the annotations from added to the given annotation set
* Also, for each annotation in removed, removes it from the given annotation set
* Called by OkAction() in the treeViewer to finalise the changes.
*/
public static boolean transferAnnotations(Document doc, AnnotationSet targetAS) {
if (doc == null || targetAS == null)
return false;
Map tempId2permId = new HashMap();
List newAnnots = new ArrayList();
AnnotationSet addedSet = doc.getAnnotations(ADDEDSET);
if (addedSet != null && !addedSet.isEmpty()) {
Iterator addedIter = addedSet.iterator();
while (addedIter.hasNext()) {
Annotation annot = addedIter.next();
try {
Integer permId =
targetAS.add(annot.getStartNode().getOffset(),
annot.getEndNode().getOffset(),
annot.getType(),
annot.getFeatures());
tempId2permId.put(annot.getId(), permId);
newAnnots.add(targetAS.get(permId));
} catch (InvalidOffsetException ex) {
Out.println("Invalid annotation offsets: "
+ annot.getStartNode().getOffset()
+ " and/or " + annot.getEndNode().getOffset());
}
}//while
//now update the consists Ids, because they have the old Ids in them
for (int i=0; i < newAnnots.size(); i++) {
Annotation newAnnot = newAnnots.get(i);
FeatureMap features = newAnnot.getFeatures();
Object value = features.get(SyntaxTreeViewer.NODE_CONSISTS_FEATURE_NAME);
@SuppressWarnings("unchecked")
List children = (List)value;
if (children == null || children.size()== 0) {
continue;
}
else {
List newList = new ArrayList();
for (int k=0; k< children.size(); k++) {
Integer oldId = children.get(k);
if (tempId2permId.get(oldId) != null)
newList.add(tempId2permId.get(oldId));
else
newList.add(oldId);
}
newAnnot.getFeatures().put(SyntaxTreeViewer.NODE_CONSISTS_FEATURE_NAME,
newList);
}
}//for
addedSet.clear();
}
doc.removeAnnotationSet(ADDEDSET);
AnnotationSet removedSet = doc.getAnnotations(REMOVEDSET);
if (removedSet != null && ! removedSet.isEmpty()) {
targetAS.removeAll(removedSet);
removedSet.clear();
}
doc.removeAnnotationSet(REMOVEDSET);
return true;
}
public static void undo(Document doc) {
AnnotationSet addedSet = doc.getAnnotations(ADDEDSET);
AnnotationSet removedSet = doc.getAnnotations(REMOVEDSET);
addedSet.clear();
removedSet.clear();
doc.removeAnnotationSet(ADDEDSET);
doc.removeAnnotationSet(REMOVEDSET);
}
/** Store the annotation in the deleted list so it can retrieved later */
public void removeAnnotation(Document doc) {
if (this.annot == null || doc == null)
return;
doc.getAnnotations(REMOVEDSET).add(this.annot);
this.annot = null;
}// public void removeAnnotation(Document doc)
} // STreeNode
// $Log$
// Revision 1.14 2005/01/11 13:51:34 ian
// Updating copyrights to 1998-2005 in preparation for v3.0
//
// Revision 1.13 2004/07/21 17:10:07 akshay
// Changed copyright from 1998-2001 to 1998-2005
//
// Revision 1.12 2004/03/25 13:01:03 valyt
// Imports optimisation throughout the Java sources
// (to get rid of annoying warnings in Eclipse)
//
// Revision 1.11 2003/01/28 10:01:16 marin
// [marin] bugfixes from Kali
//
// Revision 1.10 2001/12/03 14:04:04 kalina
// code cleanup in STreeNode.java
//
// Revision 1.9 2001/08/07 19:03:05 kalina
// Made the tree viewer use Token annotations to break the sentence for annotation
//
// Revision 1.8 2001/08/07 17:01:32 kalina
// Changed the AVR implementing classes in line with the updated AVR
// API (cancelAction() and setSpan new parameter).
//
// Also updated the TreeViewer, so now it can be used to edit and view
// Sentence annotations and the SyntaxTreeNodes associated with them.
// So if you have trees, it'll show them, if not, it'll help you build them.
//
// Revision 1.7 2001/04/09 10:36:36 oana
// a few changes in the code style
//
// Revision 1.6 2000/11/08 16:35:00 hamish
// formatting
//
// Revision 1.5 2000/10/26 10:45:25 oana
// Modified in the code style
//
// Revision 1.4 2000/10/18 13:26:47 hamish
// Factory.createResource now working, with a utility method that uses
// reflection (via java.beans.Introspector) to set properties on a resource
// from the
// parameter list fed to createResource.
// resources may now have both an interface and a class; they are indexed
// by interface type; the class is used to instantiate them
// moved createResource from CR to Factory
// removed Transients; use Factory instead
//
// Revision 1.3 2000/10/16 16:44:32 oana
// Changed the comment of DEBUG variable
//
// Revision 1.2 2000/10/10 15:36:34 oana
// Changed System.out in Out and System.err in Err;
// Added the DEBUG variable seted on false;
// Added in the header the licence;
//
// Revision 1.1 2000/09/20 17:03:37 kalina
// Added the tree viewer from the prototype. It works now with the new
// annotation API.
//
// Revision 1.6 1999/08/23 14:13:38 kalina
// Fixed resizing bugs in tree viewers
//
// Revision 1.5 1999/08/20 21:11:56 kalina
// Fixed most bugs and TreeViewer can now import and export annotations
// correctly
// There is still a delete bug somewhere.
//
// Revision 1.4 1999/08/18 17:55:24 kalina
// Added annotation export for the TreeViewer. Annotation import is the only
// thing that remains.
//
// Revision 1.3 1999/08/13 17:56:31 kalina
// Fixed the annotation of nodes in the TreeViewer to be done with click
//
// Revision 1.2 1999/08/12 16:10:12 kalina
// Added a new tree stereotype. Not in final version but would do for testing.
//
// Improved the tree viewer to allow dynamic creation of all nodes.
// Now I can build many trees or one tree; can delete non-terminal nodes;
// select/unselect nodes for annotation
// Overlapping trees are not a big problem too :-) Not wonderfully drawn but
// would do.
//
// Revision 1.1 1999/08/09 18:00:53 kalina
// Made the tree viewer to display an utterance/sentence annotation to start annotating them
//
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