Program: 188904
Project: 188904
Buggy source:
/** 
 * {@inheritDoc}This method doesn't just copy the list, it actually parses through the list and looks for values that start with " or ' and then attempts to merge other parameters separated by space until an param ending with " or ' is found. This is to work around a limitation in JOpt. It breaks apart arguments by space regarless if the arg is a quoted string (and hence should be treated as one arg)
 */
public void setParameters(List<String> parameters){
  Log.info("String_Node_Str");
  this.parameters.clear();
  boolean readingQuoteString=false;
  String quoteString=null;
  StringBuffer buffer=new StringBuffer();
  for (  String param : parameters) {
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    if (readingQuoteString && !param.endsWith(quoteString)) {
      buffer.append("String_Node_Str" + param);
    }
 else     if (param.startsWith("String_Node_Str") && !readingQuoteString) {
      quoteString="String_Node_Str";
      readingQuoteString=true;
      buffer.append(param.substring(1));
    }
 else     if (param.startsWith("String_Node_Str") && !readingQuoteString) {
      quoteString="String_Node_Str";
      readingQuoteString=true;
      buffer.append(param.substring(1));
    }
 else     if (readingQuoteString && param.endsWith(quoteString)) {
      buffer.append("String_Node_Str" + param.substring(0,param.length() - 1));
      readingQuoteString=false;
      quoteString=null;
      Log.info("String_Node_Str" + buffer.toString());
      this.parameters.add(buffer.toString());
      buffer=new StringBuffer();
    }
 else {
      Log.info("String_Node_Str" + param);
      this.parameters.add(param);
    }
  }
}

Fixed version (ground truth):
/** 
 * {@inheritDoc}This method doesn't just copy the list, it actually parses through the list and looks for values that start with " or ' and then attempts to merge other parameters separated by space until an param ending with " or ' is found. This is to work around a limitation in JOpt. It breaks apart arguments by space regarless if the arg is a quoted string (and hence should be treated as one arg)
 */
public void setParameters(List<String> parameters){
  Log.info("String_Node_Str");
  this.parameters.clear();
  boolean readingQuoteString=false;
  String quoteString=null;
  StringBuffer buffer=new StringBuffer();
  for (  String param : parameters) {
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    param=param.replaceAll("String_Node_Str","String_Node_Str");
    if (readingQuoteString && !param.endsWith(quoteString)) {
      buffer.append("String_Node_Str" + param);
    }
 else     if (param.startsWith("String_Node_Str") && !readingQuoteString) {
      quoteString="String_Node_Str";
      readingQuoteString=true;
      buffer.append(param.substring(1));
    }
 else     if (param.startsWith("String_Node_Str") && !param.endsWith("String_Node_Str") && !readingQuoteString) {
      quoteString="String_Node_Str";
      readingQuoteString=true;
      buffer.append(param.substring(1));
    }
 else     if (readingQuoteString && param.endsWith(quoteString)) {
      buffer.append("String_Node_Str" + param.substring(0,param.length() - 1));
      readingQuoteString=false;
      quoteString=null;
      Log.info("String_Node_Str" + buffer.toString());
      this.parameters.add(buffer.toString());
      buffer=new StringBuffer();
    }
 else {
      Log.info("String_Node_Str" + param);
      this.parameters.add(param);
    }
  }
}