Program: 21167
Project: 21167
Buggy source:
public void addLinksWithoutGrabber(final Vector<DownloadLink> parameter){
  if (parameter == null || parameter.size() == 0) {
    return;
  }
  Vector<DownloadLink> linkList=checkLinks(parameter);
  Vector<Vector<DownloadLink>> links=new Vector<Vector<DownloadLink>>();
  Vector<String> packages=new Vector<String>();
  SubConfiguration guiConfig=JDUtilities.getSubConfig(SimpleGUI.GUICONFIGNAME);
  for (int i=0; i < linkList.size(); i++) {
    if (!guiConfig.getBooleanProperty("String_Node_Str",true)) {
      packages.add(removeExtension(linkList.get(i).getName()));
      links.get(0).add(linkList.get(i));
    }
 else {
      int bestSim=0;
      int bestIndex=-1;
      for (int j=0; j < packages.size(); j++) {
        int sim=comparePackages(packages.get(j),removeExtension(linkList.get(i).getName()));
        if (sim > bestSim) {
          bestSim=sim;
          bestIndex=j;
        }
      }
      if (bestSim > guiConfig.getIntegerProperty("String_Node_Str",98) && bestIndex != -1) {
        links.get(bestIndex).add(linkList.get(i));
      }
 else {
        packages.add(removeExtension(linkList.get(i).getName()));
        Vector<DownloadLink> temp=new Vector<DownloadLink>();
        temp.add(linkList.get(i));
        links.add(temp);
      }
    }
  }
  for (int i=0; i < packages.size(); i++) {
    int rand=(int)(Math.random() * 0xffffff);
    Color c=new Color(rand);
    c=c.brighter();
    FilePackage fp=new FilePackage();
    fp.setProperty("String_Node_Str",c);
    fp.setName(packages.get(i));
    String downloadDir=JDUtilities.getConfiguration().getDefaultDownloadDirectory();
    if (JDUtilities.getConfiguration().getBooleanProperty(Configuration.PARAM_USE_PACKETNAME_AS_SUBFOLDER,false)) {
      File file=new File(new File(downloadDir),packages.get(i));
      if (JDUtilities.getConfiguration().getBooleanProperty(Configuration.PARAM_CREATE_SUBFOLDER_BEFORE_DOWNLOAD,false)) {
        if (!file.exists()) {
          file.mkdirs();
        }
      }
 else       fp.setDownloadDirectory(file.getAbsolutePath());
    }
 else {
      fp.setDownloadDirectory(downloadDir);
    }
    fp.setDownloadLinks(links.get(i));
    for (int j=0; j < links.get(i).size(); j++) {
      links.get(i).get(j).setFilePackage(fp);
    }
    JDUtilities.getGUI().fireUIEvent(new UIEvent(this,UIEvent.UI_PACKAGE_GRABBED,fp));
    try {
      Thread.sleep(200);
    }
 catch (    InterruptedException e) {
      e.printStackTrace();
    }
  }
}

Fixed version (ground truth):
public void addLinksWithoutGrabber(final Vector<DownloadLink> parameter){
  if (parameter == null || parameter.size() == 0) {
    return;
  }
  Vector<DownloadLink> linkList=checkLinks(parameter);
  Vector<Vector<DownloadLink>> links=new Vector<Vector<DownloadLink>>();
  Vector<String> packages=new Vector<String>();
  SubConfiguration guiConfig=JDUtilities.getSubConfig(SimpleGUI.GUICONFIGNAME);
  for (int i=0; i < linkList.size(); i++) {
    if (!guiConfig.getBooleanProperty("String_Node_Str",true)) {
      packages.add(removeExtension(linkList.get(i).getName()));
      links.get(0).add(linkList.get(i));
    }
 else {
      int bestSim=0;
      int bestIndex=-1;
      for (int j=0; j < packages.size(); j++) {
        int sim=comparePackages(packages.get(j),removeExtension(linkList.get(i).getName()));
        if (sim > bestSim) {
          bestSim=sim;
          bestIndex=j;
        }
      }
      if (bestSim > guiConfig.getIntegerProperty("String_Node_Str",98) && bestIndex != -1) {
        links.get(bestIndex).add(linkList.get(i));
      }
 else {
        packages.add(removeExtension(linkList.get(i).getName()));
        Vector<DownloadLink> temp=new Vector<DownloadLink>();
        temp.add(linkList.get(i));
        links.add(temp);
      }
    }
  }
  for (int i=0; i < packages.size(); i++) {
    int rand=(int)(Math.random() * 0xffffff);
    Color c=new Color(rand);
    c=c.brighter();
    FilePackage fp=new FilePackage();
    fp.setProperty("String_Node_Str",c);
    fp.setName(packages.get(i));
    String downloadDir=JDUtilities.getConfiguration().getDefaultDownloadDirectory();
    if (JDUtilities.getConfiguration().getBooleanProperty(Configuration.PARAM_USE_PACKETNAME_AS_SUBFOLDER,false)) {
      File file=new File(new File(downloadDir),packages.get(i));
      if (JDUtilities.getConfiguration().getBooleanProperty(Configuration.PARAM_CREATE_SUBFOLDER_BEFORE_DOWNLOAD,false)) {
        if (!file.exists())         file.mkdirs();
      }
      fp.setDownloadDirectory(file.getAbsolutePath());
    }
 else {
      fp.setDownloadDirectory(downloadDir);
    }
    fp.setDownloadLinks(links.get(i));
    for (int j=0; j < links.get(i).size(); j++) {
      links.get(i).get(j).setFilePackage(fp);
    }
    JDUtilities.getGUI().fireUIEvent(new UIEvent(this,UIEvent.UI_PACKAGE_GRABBED,fp));
    try {
      Thread.sleep(200);
    }
 catch (    InterruptedException e) {
      e.printStackTrace();
    }
  }
}