Program: 52133
Project: 52133
Buggy source:
public void merge(String formName,Item item,Record record){
  Record itemLookup=record;
  Set<String> addedMetadata=new HashSet<String>();
  for (  String field : itemLookup.getFields()) {
    String metadata=getMetadata(formName,itemLookup,field);
    if (StringUtils.isBlank(metadata)) {
      continue;
    }
    if (item.getMetadata(metadata).length == 0 || addedMetadata.contains(metadata)) {
      addedMetadata.add(metadata);
      String[] md=splitMetadata(metadata);
      if (isValidMetadata(formName,md)) {
        List<Value> values=itemLookup.getValues(field);
        if (values != null && values.size() > 0) {
          if (isRepeatableMetadata(formName,md)) {
            for (            Value value : values) {
              String[] splitValue=splitValue(value.getAsString());
              if (splitValue[3] != null) {
                item.addMetadata(md[0],md[1],md[2],md[3],splitValue[0],splitValue[1],Integer.parseInt(splitValue[2]));
              }
 else {
                item.addMetadata(md[0],md[1],md[2],md[3],value.getAsString());
              }
            }
          }
 else {
            String value=values.iterator().next().getAsString();
            String[] splitValue=splitValue(value);
            if (splitValue[3] != null) {
              item.addMetadata(md[0],md[1],md[2],md[3],splitValue[0],splitValue[1],Integer.parseInt(splitValue[2]));
            }
 else {
              item.addMetadata(md[0],md[1],md[2],md[3],value);
            }
          }
        }
      }
    }
  }
  Context context=null;
  try {
    context=new Context();
    for (    Record pub : dto.getPublications()) {
      String providerName=SubmissionLookupService.getProviderName(pub);
      if (providerName != SubmissionLookupService.MANUAL_USER_INPUT) {
        for (        String field : pub.getFields()) {
          String metadata=getMetadata(formName,pub,field);
          if (StringUtils.isBlank(metadata)) {
            continue;
          }
          String[] md=splitMetadata(metadata);
          if (isValidMetadata(formName,md)) {
            makeSureMetadataExist(context,providerName,md[1],md[2]);
            if (isRepeatableMetadata(formName,md)) {
              for (              Value value : pub.getValues(field)) {
                String[] splitValue=splitValue(value.getAsString());
                item.addMetadata(providerName,md[1],md[2],md[3],splitValue[0],splitValue[1],Integer.parseInt(splitValue[2]));
              }
            }
 else {
              String[] splitValue=splitValue(SubmissionLookupService.getFirstValue(pub,field));
              item.addMetadata(providerName,md[1],md[2],md[3],splitValue[0],splitValue[1],Integer.parseInt(splitValue[2]));
            }
          }
        }
      }
    }
  }
 catch (  Exception e) {
    throw new RuntimeException(e.getMessage(),e);
  }
 finally {
    if (context != null && context.isValid()) {
      context.abort();
    }
  }
}

Fixed version (ground truth):
public void merge(String formName,Item item,Record record){
  Record itemLookup=record;
  Set<String> addedMetadata=new HashSet<String>();
  for (  String field : itemLookup.getFields()) {
    String metadata=getMetadata(formName,itemLookup,field);
    if (StringUtils.isBlank(metadata)) {
      continue;
    }
    if (item.getMetadata(metadata).length == 0 || addedMetadata.contains(metadata)) {
      addedMetadata.add(metadata);
      String[] md=splitMetadata(metadata);
      if (isValidMetadata(formName,md)) {
        List<Value> values=itemLookup.getValues(field);
        if (values != null && values.size() > 0) {
          if (isRepeatableMetadata(formName,md)) {
            for (            Value value : values) {
              String[] splitValue=splitValue(value.getAsString());
              if (splitValue[3] != null) {
                item.addMetadata(md[0],md[1],md[2],md[3],splitValue[0],splitValue[1],Integer.parseInt(splitValue[2]));
              }
 else {
                item.addMetadata(md[0],md[1],md[2],md[3],value.getAsString());
              }
            }
          }
 else {
            String value=values.iterator().next().getAsString();
            String[] splitValue=splitValue(value);
            if (splitValue[3] != null) {
              item.addMetadata(md[0],md[1],md[2],md[3],splitValue[0],splitValue[1],Integer.parseInt(splitValue[2]));
            }
 else {
              item.addMetadata(md[0],md[1],md[2],md[3],value);
            }
          }
        }
      }
    }
  }
  Context context=null;
  try {
    context=new Context();
    for (    Record pub : dto.getPublications()) {
      String providerName=SubmissionLookupService.getProviderName(pub);
      if (providerName != SubmissionLookupService.MANUAL_USER_INPUT) {
        for (        String field : pub.getFields()) {
          String metadata=getMetadata(formName,pub,field);
          if (StringUtils.isBlank(metadata)) {
            continue;
          }
          String[] md=splitMetadata(metadata);
          if (isValidMetadata(formName,md)) {
            makeSureMetadataExist(context,providerName,md[1],md[2]);
            if (isRepeatableMetadata(formName,md)) {
              for (              Value value : pub.getValues(field)) {
                String[] splitValue=splitValue(value.getAsString());
                item.addMetadata(providerName,md[1],md[2],md[3],splitValue[0],splitValue[1],Integer.parseInt(splitValue[2]));
              }
            }
 else {
              String[] splitValue=splitValue(SubmissionLookupUtils.getFirstValue(pub,field));
              item.addMetadata(providerName,md[1],md[2],md[3],splitValue[0],splitValue[1],Integer.parseInt(splitValue[2]));
            }
          }
        }
      }
    }
  }
 catch (  Exception e) {
    throw new RuntimeException(e.getMessage(),e);
  }
 finally {
    if (context != null && context.isValid()) {
      context.abort();
    }
  }
}