Program: 88429
Project: 88429
Buggy source:
@Override public void run(ProgressStatus progressStatus){
  progressStatus.setDescription("String_Node_Str");
  progressStatus.setIndeterminate(true);
  ProjectValidator pv=new ProjectValidator(project);
  pv.validate();
  if (pv.hasErrors()) {
    Application.getInstance().getGUILog().log("String_Node_Str");
    return;
  }
  if (pv.getValidationSuite().hasErrors()) {
    Utils.displayValidationWindow(project,pv.getValidationSuite(),"String_Node_Str");
    return;
  }
  if (project.isRemote()) {
    BranchValidator bv=new BranchValidator(project);
    bv.validate(null,false);
    if (bv.hasErrors()) {
      Application.getInstance().getGUILog().log("String_Node_Str");
      return;
    }
    if (bv.getValidationSuite().hasErrors()) {
      Utils.displayValidationWindow(project,bv.getValidationSuite(),"String_Node_Str");
      return;
    }
  }
  progressStatus.setDescription("String_Node_Str" + rootElements.size() + "String_Node_Str"+ ((depth != 0) ? "String_Node_Str" : "String_Node_Str")+ "String_Node_Str"+ (rootElements.size() != 1 ? "String_Node_Str" : "String_Node_Str"));
  progressStatus.setIndeterminate(false);
  progressStatus.setMax(rootElements.size());
  progressStatus.setCurrent(0);
  List<Pair<Element,ObjectNode>> clientElements=new ArrayList<>(rootElements.size());
  Collection<File> responseFiles=new ArrayList<>(3);
  for (  Element element : rootElements) {
    collectClientElementsRecursively(project,element,depth,clientElements);
    try {
      File responseFile=collectServerElementsRecursively(project,element,depth,progressStatus);
      if (responseFile != null) {
        responseFiles.add(responseFile);
      }
      if (element == project.getPrimaryModel() && depth != 0) {
        if (progressStatus.isCancel()) {
          Application.getInstance().getGUILog().log("String_Node_Str");
          return;
        }
        responseFile=collectServerHoldingBinElementsRecursively(project,depth - 1,progressStatus);
        if (responseFile != null) {
          responseFiles.add(responseFile);
        }
        if (progressStatus.isCancel()) {
          Application.getInstance().getGUILog().log("String_Node_Str");
          return;
        }
        responseFile=collectServerModuleElementsRecursively(project,0,progressStatus);
        if (responseFile != null) {
          responseFiles.add(responseFile);
        }
      }
    }
 catch (    ServerException|URISyntaxException|IOException e) {
      Application.getInstance().getGUILog().log("String_Node_Str");
      e.printStackTrace();
      validationSuite=null;
      return;
    }
    if (responseFiles.isEmpty()) {
      if (!progressStatus.isCancel()) {
        Application.getInstance().getGUILog().log("String_Node_Str");
      }
      validationSuite=null;
      return;
    }
    progressStatus.increase();
  }
  if (progressStatus.isCancel()) {
    Application.getInstance().getGUILog().log("String_Node_Str");
    return;
  }
  elementValidator=new ElementValidator("String_Node_Str",clientElements,null,project,responseFiles);
  elementValidator.run(progressStatus);
}

Fixed version (ground truth):
@Override public void run(ProgressStatus progressStatus){
  progressStatus.setDescription("String_Node_Str");
  progressStatus.setIndeterminate(true);
  ProjectValidator pv=new ProjectValidator(project);
  pv.validate();
  if (pv.hasErrors()) {
    Application.getInstance().getGUILog().log("String_Node_Str");
    return;
  }
  if (pv.getValidationSuite().hasErrors()) {
    Utils.displayValidationWindow(project,pv.getValidationSuite(),"String_Node_Str");
    return;
  }
  if (project.isRemote()) {
    BranchValidator bv=new BranchValidator(project);
    bv.validate(null,false);
    if (bv.hasErrors()) {
      Application.getInstance().getGUILog().log("String_Node_Str");
      return;
    }
    if (bv.getValidationSuite().hasErrors()) {
      Utils.displayValidationWindow(project,bv.getValidationSuite(),"String_Node_Str");
      return;
    }
  }
  progressStatus.setDescription("String_Node_Str" + rootElements.size() + "String_Node_Str"+ ((depth != 0) ? "String_Node_Str" : "String_Node_Str")+ "String_Node_Str"+ (rootElements.size() != 1 ? "String_Node_Str" : "String_Node_Str"));
  progressStatus.setIndeterminate(false);
  progressStatus.setMax(rootElements.size());
  progressStatus.setCurrent(0);
  List<Pair<Element,ObjectNode>> clientElements=new ArrayList<>(rootElements.size());
  Collection<File> responseFiles=new ArrayList<>(3);
  for (  Element element : rootElements) {
    collectClientElementsRecursively(project,element,depth,clientElements);
    Set<String> clientElementIds=clientElements.stream().map(pair -> pair.getKey().getLocalID()).collect(Collectors.toCollection(LinkedHashSet::new));
    try {
      File recursiveResponseFile, traversedResponseFile, responseFile;
      recursiveResponseFile=collectServerElementsRecursively(project,element,depth,progressStatus);
      if (recursiveResponseFile != null) {
        responseFiles.add(recursiveResponseFile);
      }
      if (clientElementIds.size() > 1) {
        traversedResponseFile=MMSUtils.getElements(project,clientElementIds,progressStatus);
        if (traversedResponseFile != null) {
          responseFiles.add(traversedResponseFile);
        }
      }
      if (element == project.getPrimaryModel() && depth != 0) {
        if (progressStatus.isCancel()) {
          Application.getInstance().getGUILog().log("String_Node_Str");
          return;
        }
        responseFile=collectServerHoldingBinElementsRecursively(project,depth - 1,progressStatus);
        if (responseFile != null) {
          responseFiles.add(responseFile);
        }
        if (progressStatus.isCancel()) {
          Application.getInstance().getGUILog().log("String_Node_Str");
          return;
        }
        responseFile=collectServerModuleElementsRecursively(project,0,progressStatus);
        if (responseFile != null) {
          responseFiles.add(responseFile);
        }
      }
    }
 catch (    ServerException|URISyntaxException|IOException e) {
      Application.getInstance().getGUILog().log("String_Node_Str");
      e.printStackTrace();
      validationSuite=null;
      return;
    }
    if (responseFiles.isEmpty()) {
      if (!progressStatus.isCancel()) {
        Application.getInstance().getGUILog().log("String_Node_Str");
      }
      validationSuite=null;
      return;
    }
    progressStatus.increase();
  }
  if (progressStatus.isCancel()) {
    Application.getInstance().getGUILog().log("String_Node_Str");
    return;
  }
  elementValidator=new ElementValidator("String_Node_Str",clientElements,null,project,responseFiles);
  elementValidator.run(progressStatus);
}