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Posted to commits@ctakes.apache.org by dl...@apache.org on 2013/01/14 17:48:13 UTC
svn commit: r1432987 -
/incubator/ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/ae/Baseline3EntityMentionPairRelationExtractorAnnotator.java
Author: dligach
Date: Mon Jan 14 16:48:12 2013
New Revision: 1432987
URL: http://svn.apache.org/viewvc?rev=1432987&view=rev
Log:
updated baseline 3
Modified:
incubator/ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/ae/Baseline3EntityMentionPairRelationExtractorAnnotator.java
Modified: incubator/ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/ae/Baseline3EntityMentionPairRelationExtractorAnnotator.java
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/ae/Baseline3EntityMentionPairRelationExtractorAnnotator.java?rev=1432987&r1=1432986&r2=1432987&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/ae/Baseline3EntityMentionPairRelationExtractorAnnotator.java (original)
+++ incubator/ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/ae/Baseline3EntityMentionPairRelationExtractorAnnotator.java Mon Jan 14 16:48:12 2013
@@ -31,9 +31,7 @@ import org.apache.ctakes.typesystem.type
import org.apache.ctakes.typesystem.type.textspan.Sentence;
import org.apache.uima.cas.CAS;
import org.apache.uima.cas.CASException;
-import org.apache.uima.cas.FeatureStructure;
import org.apache.uima.jcas.JCas;
-import org.apache.uima.jcas.cas.FSArray;
import org.apache.uima.jcas.tcas.Annotation;
import org.cleartk.classifier.Feature;
import org.uimafit.descriptor.ConfigurationParameter;
@@ -84,47 +82,72 @@ public class Baseline3EntityMentionPairR
}
}
- List<EntityMention> anatomicalSites = new ArrayList<EntityMention>();
- for(EntityMention entityMention : args) {
- if(entityMention.getTypeID() == 6) {
- anatomicalSites.add(entityMention);
+ // find pairs enclosed inside a noun phrase
+ List<IdentifiedAnnotationPair> result = new ArrayList<IdentifiedAnnotationPair>();
+ for(IdentifiedAnnotationPair pair : pairs) {
+ if(validateArgumentTypes(pair)) {
+ for(TreebankNode nounPhrase : getNounPhrases(identifiedAnnotationView, sentence)) {
+ if(isEnclosed(pair, nounPhrase)) {
+ IdentifiedAnnotation arg1 = pair.getArg1();
+ IdentifiedAnnotation arg2 = pair.getArg2();
+ result.add(new IdentifiedAnnotationPair(arg1, arg2));
+
+ System.out.println("NP: " + nounPhrase.getCoveredText() + ", " + nounPhrase.getBegin() + ", " + nounPhrase.getEnd());
+ System.out.println("arg1: " + arg1.getCoveredText() + ", " + arg1.getBegin() + ", " + arg1.getEnd());
+ System.out.println("arg2: " + arg2.getCoveredText() + ", " + arg2.getBegin() + ", " + arg2.getEnd());
+ System.out.println();
+
+ break; // don't check other NPs
+ }
+ }
}
}
- if(anatomicalSites.size() == 0) {
- return new ArrayList<IdentifiedAnnotationPair>();
- }
-
- for(EntityMention anatomicalSite : anatomicalSites) {
- try {
- List<TreebankNode> treebankNodes = JCasUtil.selectCovering(
- identifiedAnnotationView.getView(CAS.NAME_DEFAULT_SOFA),
- TreebankNode.class,
- anatomicalSite.getBegin(),
- anatomicalSite.getEnd());
- for(TreebankNode treebankNode : treebankNodes) {
- if(treebankNode.getNodeType().equals("NP")) {
- FSArray fsArray = treebankNode.getChildren();
- if(fsArray == null) {
- System.out.println("NULL");
- } else {
- for(FeatureStructure featureStructure : fsArray.toArray()) {
- TreebankNode childNode = (TreebankNode) featureStructure;
- System.out.println(sentence.getCoveredText());
- System.out.println("anatomical site: " + anatomicalSite.getCoveredText());
- System.out.println("child node: " + childNode.getCoveredText());
- System.out.println();
- }
- }
- }
- }
- } catch (CASException e) {
- e.printStackTrace();
- }
- }
+ return result;
+ }
+
+ /*
+ * Is this pair of entities enclosed inside a noun phrase?
+ */
+ boolean isEnclosed(IdentifiedAnnotationPair pair, TreebankNode np) {
+
+ IdentifiedAnnotation arg1 = pair.getArg1();
+ IdentifiedAnnotation arg2 = pair.getArg2();
- // for all other cases, return no entity pairs
- return new ArrayList<IdentifiedAnnotationPair>();
+ if((np.getBegin() <= arg1.getBegin()) &&
+ (np.getEnd() >= arg1.getEnd()) &&
+ (np.getBegin() <= arg2.getBegin()) &&
+ (np.getEnd() >= arg2.getEnd())) {
+ return true;
+ }
+
+ return false;
+ }
+
+ /**
+ * Get all noun phrases in a sentence.
+ */
+ List<TreebankNode> getNounPhrases(JCas identifiedAnnotationView, Sentence sentence) {
+
+ List<TreebankNode> nounPhrases = new ArrayList<TreebankNode>();
+ List<TreebankNode> treebankNodes;
+ try {
+ treebankNodes = JCasUtil.selectCovered(
+ identifiedAnnotationView.getView(CAS.NAME_DEFAULT_SOFA),
+ TreebankNode.class,
+ sentence);
+ } catch (CASException e) {
+ treebankNodes = new ArrayList<TreebankNode>();
+ System.out.println("couldn't get default sofa");
+ }
+
+ for(TreebankNode treebankNode : treebankNodes) {
+ if(treebankNode.getNodeType().equals("NP")) {
+ nounPhrases.add(treebankNode);
+ }
+ }
+
+ return nounPhrases;
}
/*