Program: 139863
Project: 139863
Buggy source:
public boolean execute(){
  try {
    IProject rootProject=ResourceManager.getRootProject();
    if (!rootProject.exists()) {
      rootProject=DQStructureManager.getInstance().createNewProject(ResourceManager.DEFAULT_PROJECT_NAME);
    }
    IResource[] resources=ResourcesPlugin.getWorkspace().getRoot().members();
    if (resources != null && resources.length > 0) {
      for (      IResource resource : resources) {
        if (resource.getName().equals("String_Node_Str") || resource.getName().equals("String_Node_Str") || resource.getName().equals("String_Node_Str")) {
          IPath destination=null;
          IFolder prefixFolder=rootProject.getFolder(DQStructureManager.PREFIX_TDQ + resource.getName());
          prefixFolder.create(IResource.FORCE,true,new NullProgressMonitor());
          for (          IResource rs : ((IProject)resource).members()) {
            if (rs.getName().equals("String_Node_Str")) {
              continue;
            }
            destination=prefixFolder.getFolder(rs.getName()).getFullPath();
            rs.copy(destination,IResource.FORCE,new NullProgressMonitor());
          }
          resource.delete(true,new NullProgressMonitor());
        }
      }
    }
    String pathName=ResourcesPlugin.getWorkspace().getRoot().getLocation().toOSString() + "String_Node_Str";
    File repFolder=new File(pathName);
    if (repFolder.exists()) {
      FileUtils.copyDirectory(repFolder,ResourceManager.getDataProfilingFolder().getLocation().toFile());
      FileUtils.forceDelete(new File(pathName));
    }
    fileContentUpgrade(rootProject);
  }
 catch (  InvocationTargetException e) {
    logger.error(e,e);
  }
catch (  InterruptedException e) {
    logger.error(e,e);
  }
catch (  CoreException e) {
    logger.error(e,e);
  }
catch (  IOException e) {
    logger.error(e,e);
  }
catch (  Throwable e) {
    logger.error(e);
  }
  return false;
}

Fixed version (ground truth):
public boolean execute(){
  try {
    IProject rootProject=ResourceManager.getRootProject();
    if (!rootProject.exists()) {
      rootProject=DQStructureManager.getInstance().createNewProject(ResourceManager.DEFAULT_PROJECT_NAME);
    }
    IResource[] resources=ResourcesPlugin.getWorkspace().getRoot().members();
    if (resources != null && resources.length > 0) {
      for (      IResource resource : resources) {
        if (resource.getName().equals("String_Node_Str") || resource.getName().equals("String_Node_Str") || resource.getName().equals("String_Node_Str")) {
          IPath destination=null;
          IFolder prefixFolder=rootProject.getFolder(DQStructureManager.PREFIX_TDQ + resource.getName());
          prefixFolder.create(IResource.FORCE,true,new NullProgressMonitor());
          for (          IResource rs : ((IProject)resource).members()) {
            if (rs.getName().equals("String_Node_Str")) {
              continue;
            }
            destination=prefixFolder.getFolder(rs.getName()).getFullPath();
            rs.copy(destination,IResource.FORCE,new NullProgressMonitor());
          }
          resource.delete(true,new NullProgressMonitor());
        }
      }
    }
    String pathName=ResourcesPlugin.getWorkspace().getRoot().getLocation().toOSString() + "String_Node_Str";
    File repFolder=new File(pathName);
    if (repFolder.exists()) {
      FileUtils.copyDirectory(repFolder,ResourceManager.getReportingDBFolder().getLocation().toFile());
      FileUtils.forceDelete(new File(pathName));
    }
    fileContentUpgrade(rootProject);
  }
 catch (  InvocationTargetException e) {
    logger.error(e,e);
  }
catch (  InterruptedException e) {
    logger.error(e,e);
  }
catch (  CoreException e) {
    logger.error(e,e);
  }
catch (  IOException e) {
    logger.error(e,e);
  }
catch (  Throwable e) {
    logger.error(e);
  }
  return false;
}