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Posted to commits@ctakes.apache.org by dl...@apache.org on 2013/05/31 16:11:11 UTC
svn commit: r1488241 -
/ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/pipelines/RelationAnnotationAnalysis.java
Author: dligach
Date: Fri May 31 14:11:11 2013
New Revision: 1488241
URL: http://svn.apache.org/r1488241
Log:
simplified this pipeline
Modified:
ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/pipelines/RelationAnnotationAnalysis.java
Modified: ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/pipelines/RelationAnnotationAnalysis.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/pipelines/RelationAnnotationAnalysis.java?rev=1488241&r1=1488240&r2=1488241&view=diff
==============================================================================
--- ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/pipelines/RelationAnnotationAnalysis.java (original)
+++ ctakes/trunk/ctakes-relation-extractor/src/main/java/org/apache/ctakes/relationextractor/pipelines/RelationAnnotationAnalysis.java Fri May 31 14:11:11 2013
@@ -23,13 +23,22 @@ import java.util.Arrays;
import java.util.List;
import org.apache.ctakes.relationextractor.eval.XMIReader;
+import org.apache.ctakes.typesystem.type.relation.BinaryTextRelation;
+import org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation;
+import org.apache.ctakes.typesystem.type.textspan.Sentence;
import org.apache.uima.analysis_engine.AnalysisEngine;
+import org.apache.uima.analysis_engine.AnalysisEngineProcessException;
+import org.apache.uima.cas.CAS;
+import org.apache.uima.cas.CASException;
import org.apache.uima.collection.CollectionReader;
+import org.apache.uima.jcas.JCas;
import org.cleartk.util.Options_ImplBase;
import org.kohsuke.args4j.Option;
+import org.uimafit.component.JCasAnnotator_ImplBase;
import org.uimafit.factory.AnalysisEngineFactory;
import org.uimafit.factory.CollectionReaderFactory;
import org.uimafit.pipeline.SimplePipeline;
+import org.uimafit.util.JCasUtil;
/**
*
@@ -58,15 +67,52 @@ public class RelationAnnotationAnalysis
List<File> trainFiles = Arrays.asList(options.inputDirectory.listFiles());
CollectionReader collectionReader = getCollectionReader(trainFiles);
- AnalysisEngine relationExtractorConsumer = AnalysisEngineFactory.createPrimitive(
- RelationExtractorConsumer.class);
+ AnalysisEngine relationExtractorPrinter = AnalysisEngineFactory.createPrimitive(
+ RelationExtractorPrinter.class);
- SimplePipeline.runPipeline(collectionReader, relationExtractorConsumer);
+ SimplePipeline.runPipeline(collectionReader, relationExtractorPrinter);
}
-
+
+ public static class RelationExtractorPrinter extends JCasAnnotator_ImplBase {
+
+ @Override
+ public void process(JCas jCas) throws AnalysisEngineProcessException {
+
+ JCas systemView;
+ try {
+ systemView = jCas.getView(CAS.NAME_DEFAULT_SOFA);
+ } catch (CASException e) {
+ throw new AnalysisEngineProcessException(e);
+ }
+
+ System.out.println();
+ for(BinaryTextRelation binaryTextRelation : JCasUtil.select(systemView, BinaryTextRelation.class)) {
+ IdentifiedAnnotation entity1; // entity whose role is "Argument"
+ IdentifiedAnnotation entity2; // entity whose role is "Related_to"
+
+ if(binaryTextRelation.getArg1().getRole().equals("Argument")) {
+ entity1 = (IdentifiedAnnotation) binaryTextRelation.getArg1().getArgument();
+ entity2 = (IdentifiedAnnotation) binaryTextRelation.getArg2().getArgument();
+ } else {
+ entity1 = (IdentifiedAnnotation) binaryTextRelation.getArg2().getArgument();
+ entity2 = (IdentifiedAnnotation) binaryTextRelation.getArg1().getArgument();
+ }
+
+ String category = binaryTextRelation.getCategory();
+ String arg1 = entity1.getCoveredText();
+ String arg2 = entity2.getCoveredText();
+ int type1 = entity1.getTypeID();
+ int type2 = entity2.getTypeID();
+
+ // print relation and its arguments: location_of(colon/6, colon cancer/2)
+ System.out.format("%s(%s/%d, %s/%d)\n", category, arg1, type1, arg2, type2);
+ }
+ }
+ }
+
private static CollectionReader getCollectionReader(List<File> items) throws Exception {
- // convert the List<File> to a String[]
+ // convert the List<File> to a String[]
String[] paths = new String[items.size()];
for (int i = 0; i < paths.length; ++i) {
paths[i] = items.get(i).getPath();