Package org.mitre.medfacts.i2b2.training

Examples of org.mitre.medfacts.i2b2.training.TrainingInstance.addFeature()

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                  if ((conceptBeginTokenOffset - cueBegin) < 4) {
                      trainingInstance.addFeature("cue_" + cueType + "_left_3");
                  }
              } else {
                  int cueEnd = cue.getEnd().getTokenOffset();
                  trainingInstance.addFeature("cue_" + cueType + "_right");
                  if ((cueEnd - conceptEndTokenOffset) < 4) {
                      trainingInstance.addFeature("cue_" + cueType + "_right_3");
                  }
              }
            }
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                  }
              } else {
                  int cueEnd = cue.getEnd().getTokenOffset();
                  trainingInstance.addFeature("cue_" + cueType + "_right");
                  if ((cueEnd - conceptEndTokenOffset) < 4) {
                      trainingInstance.addFeature("cue_" + cueType + "_right_3");
                  }
              }
            }
            if (checkForEnabledFeature("inCue"))
            {
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                  }
              }
            }
            if (checkForEnabledFeature("inCue"))
            {
              trainingInstance.addFeature("in_cue_" + currentToken);
            }
            if (checkForEnabledFeature("inCueForScopeId"))
            {
              trainingInstance.addFeature("in_cue_for_scope_id_" + cue.getScopeIdReference() + "_" + currentToken);
            }
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            {
              trainingInstance.addFeature("in_cue_" + currentToken);
            }
            if (checkForEnabledFeature("inCueForScopeId"))
            {
              trainingInstance.addFeature("in_cue_for_scope_id_" + cue.getScopeIdReference() + "_" + currentToken);
            }
          }

          if (checkForEnabledFeature("zone"))
          {
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          if (checkForEnabledFeature("zone"))
          {
            if (a instanceof ZoneAnnotation)
            {
              ZoneAnnotation zone = (ZoneAnnotation)a;
              trainingInstance.addFeature("zone_" + MedFactsRunner.escapeFeatureName(zone.getZoneName()));
            }
          }

        } // end of for loop over a : annotationsAtCurrentPosition
      }
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      String conceptText = currentAssertionAnnotation.getConceptText();
      if (checkForEnabledFeature("conceptTextFeature"))
      {
        String conceptTextFeature = MedFactsRunner.constructConceptPhraseFeature(conceptText);
        trainingInstance.addFeature(conceptTextFeature);
      }

      if (checkForEnabledFeature("conceptPseudoHeadFeature"))
      {
          int ln = currentAssertionAnnotation.getEnd().getLine();
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//          logger.finest(String.format("textLookup's size: %d", textLookup.length));
//          logger.finest(String.format("textLookup[ln-1]'s size: %d", textLookup[ln-1].length));
//          logger.finest(ZonerCli.printOutLineOfTokens(textLookup[ln-1]));

          String conceptHead = textLookup[ln-1][pos];
          trainingInstance.addFeature(constructConceptHeadFeature(conceptHead));
        //Matcher conceptHeadMatcher = conceptHeadPattern.matcher(conceptText);
        //if (conceptHeadMatcher.find())
        //{
        //  String conceptHeadText = conceptHeadMatcher.group(1);
        //  String conceptHeadFeature = constructConceptHeadFeature(conceptHeadText);
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      int conceptEndTokenOffset = conceptEndLocation.getTokenOffset();
      String currentLine[] = textLookup[conceptBeginLine-1];

      if (checkForEnabledFeature("conceptUnigrams")) {
          for (int k = conceptBeginTokenOffset; k <= conceptEndTokenOffset; k++) {
              trainingInstance.addFeature("concept_unigram_" + StringHandling.escapeStringForFeatureName(currentLine[k]));
          }
      }

      if (checkForEnabledFeature("wordLeftFeature"))
      {
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      if (checkForEnabledFeature("wordLeftFeature"))
      {
        List<String> wordLeftFeatureList = FeatureUtility.constructWordLeftFeatureList(conceptBeginTokenOffset, conceptEndTokenOffset, currentLine);
        for (String currentFeature : wordLeftFeatureList)
        {
          trainingInstance.addFeature(currentFeature);
        }
      }

      if (checkForEnabledFeature("wordRightFeature"))
      {
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      if (checkForEnabledFeature("wordRightFeature"))
      {
        List<String> wordRightFeatureList = FeatureUtility.constructWordRightFeatureList(conceptBeginTokenOffset, conceptEndTokenOffset, currentLine);
        for (String currentFeature : wordRightFeatureList)
        {
          trainingInstance.addFeature(currentFeature);
        }
      }

      if (checkForEnabledFeature("posRightFeature")){
  trainingInstance.addFeature(FeatureUtility.constructPosRightFeatureList(conceptBeginTokenOffset, conceptEndTokenOffset, (conceptBeginLine-1), currentLine, indexer));
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