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 package org.apache.ctakes.temporal.duration;
 
 import java.io.File;
 import java.util.List;
 import java.util.Map;
 
 
Analyze duration information for the relation arguments of CONTAINS relation.

Author(s):
dmitriy dligach
 
 public class EventEventDurationStatistics {
 
   static interface Options {
 
     @Option(longName = "xmi-dir")
     public File getInputDirectory();
 
     @Option(longName = "patients")
 
     @Option(longName = "output-file")
     public File getOutputFile();
   }
 
   public static void main(String[] argsthrows Exception {
 
     Options options = CliFactory.parseArguments(Options.classargs);
 
     List<IntegerpatientSets = options.getPatients().getList();
     List<IntegertrainItems = THYMEData.getPatientSets(patientSets.);
     List<FiletrainFiles = Utils.getFilesFor(trainItemsoptions.getInputDirectory());
     CollectionReader collectionReader = Utils.getCollectionReader(trainFiles);
 
     AnalysisEngine annotationConsumer = AnalysisEngineFactory.createEngine(
         AnalyseRelationArgumentDuration.class,
         "OutputFile",
         options.getOutputFile());
 
     SimplePipeline.runPipeline(collectionReaderannotationConsumer);
   }

  
Look at event-event relations whose event arguments have duration data.
 
   public static class AnalyseRelationArgumentDuration extends JCasAnnotator_ImplBase {                                               
 
         name = "OutputFile",
         mandatory = true,
         description = "path to the file that stores relation data")
     private String outputFile;
 
     public static final String GOLD_VIEW_NAME = "GoldView";
 
     @Override                                                                                                                  
     public void process(JCas jCasthrows AnalysisEngineProcessException {                                                     
 
      File durationLookup = new File(.);                      
      Map<StringMap<StringFloat>> textToDistribution = null;                                                                 
      try {                                                                                                                      
        textToDistribution = Files.readLines(durationLookup.new Utils.Callback());                                    
      } catch(IOException e) {                                                                                                   
        e.printStackTrace();                                                                                                     
        return;                                                                                                                  
      }  
      JCas goldView;                                                                                                           
      try {                                                                                                                    
        goldView = jCas.getView();                                                                               
      } catch (CASException e) {                                                                                               
        throw new AnalysisEngineProcessException(e);                                                                           
      }                                                                                                                                                                                                                                         
      // find event-time relations where both arguments have duration information
      for(BinaryTextRelation relation : Lists.newArrayList(JCasUtil.select(goldViewBinaryTextRelation.class))) {
        if(! relation.getCategory().equals("CONTAINS")) {
          continue;
        }
        
        RelationArgument arg1 = relation.getArg1();                                                                             
        RelationArgument arg2 = relation.getArg2(); 
        String event1Text;
        String event2Text;
        if(arg1.getArgument() instanceof EventMention && arg2.getArgument() instanceof EventMention) {
          event1Text = Utils.normalizeEventText(jCasarg1.getArgument());
          event2Text = Utils.normalizeEventText(jCasarg2.getArgument());
        } else {
          // this is not an event-event relation
          continue;
        }
        if(textToDistribution.containsKey(event1Text) && textToDistribution.containsKey(event2Text)) {
          // there is duration information for both arguments
          float event1ExpectedDuration = Utils.expectedDuration(textToDistribution.get(event1Text));
          float event2ExpectedDuration = Utils.expectedDuration(textToDistribution.get(event2Text));
          String context = Utils.getTextBetweenAnnotations(goldViewarg1.getArgument(), arg2.getArgument());
          String out = String.format("%s|%.5f|%s|%.5f|%s\n"
              event1Textevent1ExpectedDuration * 3650, 
              event2Textevent2ExpectedDuration * 3650, 
              context.length() < 80 ? context : "...");
          try {
            Files.append(outnew File(), .);
          } catch (IOException e) {
            e.printStackTrace();
          }
        }
      }
    }
  }
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