/**
* Licensed to the Apache Software Foundation (ASF) under one
* or more contributor license agreements. See the NOTICE file
* distributed with this work for additional information
* regarding copyright ownership. The ASF licenses this file
* to you under the Apache License, Version 2.0 (the
* "License"); you may not use this file except in compliance
* with the License. You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing,
* software distributed under the License is distributed on an
* "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
* KIND, either express or implied. See the License for the
* specific language governing permissions and limitations
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package org.apache.ctakes.assertion.medfacts.cleartk.extractors;
import java.util.List;
import org.apache.ctakes.assertion.pipelines.GenerateDependencyRepresentation;
import org.apache.ctakes.assertion.util.AssertionDepUtils;
import org.apache.ctakes.assertion.util.AssertionTreeUtils;
import org.apache.ctakes.assertion.util.SemanticClasses;
import org.apache.ctakes.core.resource.FileLocator;
import org.apache.ctakes.typesystem.type.syntax.ConllDependencyNode;
import org.apache.ctakes.typesystem.type.textspan.Sentence;
import org.apache.ctakes.utils.tree.SimpleTree;
import org.apache.uima.jcas.JCas;
import org.apache.uima.jcas.tcas.Annotation;
import org.cleartk.classifier.Feature;
import org.cleartk.classifier.TreeFeature;
import org.cleartk.classifier.feature.extractor.CleartkExtractorException;
import org.cleartk.classifier.feature.extractor.simple.SimpleFeatureExtractor;
import org.cleartk.util.CleartkInitializationException;
import org.uimafit.util.JCasUtil;
import com.google.common.collect.Lists;
public class AssertionDependencyTreeExtractor implements SimpleFeatureExtractor {
protected SemanticClasses sems = null;
public AssertionDependencyTreeExtractor() throws CleartkInitializationException {
try{
sems = new SemanticClasses(FileLocator.getAsStream("org/apache/ctakes/assertion/all_cues.txt"));
}catch(Exception e){
throw new CleartkInitializationException(e, "org/apache/ctakes/assertion/semantic_classes", "Could not find semantic classes resource.", new Object[]{});
}
}
@Override
public List<Feature> extract(JCas jCas, Annotation arg1)
throws CleartkExtractorException {
List<Feature> feats = Lists.newArrayList();
TreeFeature f1 = null;
String treeString = null;
List<Sentence> sents = JCasUtil.selectCovering(jCas, Sentence.class, arg1.getBegin(), arg1.getEnd());
if(sents == null || sents.size() == 0){
treeString = "(S (no parse))";
}else{
Sentence sent = sents.get(0);
List<ConllDependencyNode> nodes = JCasUtil.selectCovered(ConllDependencyNode.class, sent);
//treeString = AnnotationDepUtils.getTokenRelTreeString(jCas, nodes, new Annotation[]{arg1}, new String[]{"CONCEPT"}, true);
// treeString = AssertionDepUtils.getTokenRelTreeString(jCas, nodes, arg1, "CONCEPT");
SimpleTree tree = AssertionDepUtils.getTokenTreeString(jCas, nodes, arg1, GenerateDependencyRepresentation.UP_NODES);
if(tree == null){
treeString = "(S (no parse))";
}else{
AssertionTreeUtils.replaceDependencyWordsWithSemanticClasses(tree, sems);
treeString = tree.toString();
// treeString = treeString.replaceAll("\\(([^ ]+) \\)", "$1");
}
}
f1 = new TreeFeature("TK_DW", treeString);
feats.add(f1);
return feats;
}
}