Program: 34376
Project: 34376
Buggy source:
@Override protected boolean handleProcess(Set<? extends TypeElement> annotations,RoundEnvironment roundEnv) throws LayerGenerationException {
  Messager messager=processingEnv.getMessager();
  for (  Element e : roundEnv.getElementsAnnotatedWith(PropertyEditorSearchPath.class)) {
    String pkg=findPackage(e);
    String pkgFilename=pkg.replace("String_Node_Str","String_Node_Str");
    LayerBuilder builder=layer(e);
    LayerBuilder.File file=builder.file(NodesRegistrationSupport.PE_LOOKUP_PATH + "String_Node_Str" + pkgFilename+ "String_Node_Str");
    file.methodvalue("String_Node_Str",NodesRegistrationSupport.class.getName(),"String_Node_Str");
    file.stringvalue(NodesRegistrationSupport.PACKAGE,pkg);
    file.stringvalue("String_Node_Str",NodesRegistrationSupport.PEPackageRegistration.class.getName());
    file.write();
  }
  for (  Element e : roundEnv.getElementsAnnotatedWith(PropertyEditorRegistration.class)) {
    if (e.getKind() == ElementKind.CLASS) {
      String className=((TypeElement)e).getQualifiedName().toString();
      Collection<AnnotationValue> targetTypes=null;
      List<? extends AnnotationMirror> annotationMirrors=e.getAnnotationMirrors();
      for (      AnnotationMirror am : annotationMirrors) {
        for (        Entry<? extends ExecutableElement,? extends AnnotationValue> entry : am.getElementValues().entrySet()) {
          if ("String_Node_Str".equals(entry.getKey().getSimpleName().toString())) {
            targetTypes=(Collection<AnnotationValue>)entry.getValue().getValue();
          }
        }
      }
      if (targetTypes == null) {
        messager.printMessage(Kind.ERROR,"String_Node_Str",e);
        continue;
      }
      TypeElement typeElement=processingEnv.getElementUtils().getTypeElement("String_Node_Str");
      if (!processingEnv.getTypeUtils().isSubtype(e.asType(),typeElement.asType())) {
        messager.printMessage(Kind.ERROR,className + "String_Node_Str",e);
        continue;
      }
      LayerBuilder builder=layer(e);
      String clsFileName=className.replace("String_Node_Str","String_Node_Str");
      LayerBuilder.File file=builder.instanceFile(NodesRegistrationSupport.PE_LOOKUP_PATH,"String_Node_Str" + clsFileName);
      file.methodvalue("String_Node_Str",NodesRegistrationSupport.class.getName(),"String_Node_Str");
      file.stringvalue(NodesRegistrationSupport.EDITOR_CLASS,className);
      file.stringvalue("String_Node_Str",NodesRegistrationSupport.PEClassRegistration.class.getName());
      int i=1;
      for (      AnnotationValue type : targetTypes) {
        String clsName=type.accept(new SimpleAnnotationValueVisitor6<String,Object>(){
          @Override public String visitType(          TypeMirror t,          Object p){
            return t.toString();
          }
        }
,null);
        file.stringvalue("String_Node_Str" + i,clsName);
        i++;
      }
      file.write();
    }
  }
  for (  Element e : roundEnv.getElementsAnnotatedWith(BeanInfoSearchPath.class)) {
    String pkg=findPackage(e);
    String pkgFilename=pkg.replace("String_Node_Str","String_Node_Str");
    LayerBuilder builder=layer(e);
    LayerBuilder.File file=builder.file(NodesRegistrationSupport.BEANINFO_LOOKUP_PATH + "String_Node_Str" + pkgFilename+ "String_Node_Str");
    file.methodvalue("String_Node_Str",NodesRegistrationSupport.class.getName(),"String_Node_Str");
    file.stringvalue(NodesRegistrationSupport.PACKAGE,pkg);
    file.stringvalue("String_Node_Str",NodesRegistrationSupport.BeanInfoRegistration.class.getName());
    file.write();
  }
  return true;
}

Fixed version (ground truth):
@Override protected boolean handleProcess(Set<? extends TypeElement> annotations,RoundEnvironment roundEnv) throws LayerGenerationException {
  Messager messager=processingEnv.getMessager();
  for (  Element e : roundEnv.getElementsAnnotatedWith(PropertyEditorSearchPath.class)) {
    String pkg=findPackage(e);
    String pkgFilename=pkg.replace("String_Node_Str","String_Node_Str");
    LayerBuilder builder=layer(e);
    LayerBuilder.File file=builder.file(NodesRegistrationSupport.PE_LOOKUP_PATH + "String_Node_Str" + pkgFilename+ "String_Node_Str");
    file.methodvalue("String_Node_Str",NodesRegistrationSupport.class.getName(),"String_Node_Str");
    file.stringvalue(NodesRegistrationSupport.PACKAGE,pkg);
    file.stringvalue("String_Node_Str",NodesRegistrationSupport.PEPackageRegistration.class.getName());
    file.write();
  }
  for (  Element e : roundEnv.getElementsAnnotatedWith(PropertyEditorRegistration.class)) {
    if (e.getKind() == ElementKind.CLASS) {
      String className=((TypeElement)e).getQualifiedName().toString();
      Collection<AnnotationValue> targetTypes=null;
      List<? extends AnnotationMirror> annotationMirrors=e.getAnnotationMirrors();
      for (      AnnotationMirror am : annotationMirrors) {
        for (        Entry<? extends ExecutableElement,? extends AnnotationValue> entry : am.getElementValues().entrySet()) {
          if ("String_Node_Str".equals(entry.getKey().getSimpleName().toString())) {
            targetTypes=(Collection<AnnotationValue>)entry.getValue().getValue();
          }
        }
      }
      if (targetTypes == null) {
        messager.printMessage(Kind.ERROR,"String_Node_Str",e);
        continue;
      }
      TypeElement typeElement=processingEnv.getElementUtils().getTypeElement("String_Node_Str");
      if (!processingEnv.getTypeUtils().isSubtype(e.asType(),typeElement.asType())) {
        messager.printMessage(Kind.ERROR,className + "String_Node_Str",e);
        continue;
      }
      LayerBuilder builder=layer(e);
      String clsFileName=className.replace("String_Node_Str","String_Node_Str");
      LayerBuilder.File file=builder.instanceFile(NodesRegistrationSupport.PE_LOOKUP_PATH,"String_Node_Str" + clsFileName);
      file.methodvalue("String_Node_Str",NodesRegistrationSupport.class.getName(),"String_Node_Str");
      file.stringvalue(NodesRegistrationSupport.EDITOR_CLASS,className);
      file.stringvalue("String_Node_Str",NodesRegistrationSupport.PEClassRegistration.class.getName());
      int i=1;
      for (      AnnotationValue type : targetTypes) {
        String clsName=type.accept(new SimpleAnnotationValueVisitor6<String,Object>(){
          @Override public String visitType(          TypeMirror t,          Object p){
            if (t.getKind() == TypeKind.DECLARED) {
              return processingEnv.getElementUtils().getBinaryName((TypeElement)processingEnv.getTypeUtils().asElement(t)).toString();
            }
            return t.toString();
          }
        }
,null);
        file.stringvalue("String_Node_Str" + i,clsName);
        i++;
      }
      file.write();
    }
  }
  for (  Element e : roundEnv.getElementsAnnotatedWith(BeanInfoSearchPath.class)) {
    String pkg=findPackage(e);
    String pkgFilename=pkg.replace("String_Node_Str","String_Node_Str");
    LayerBuilder builder=layer(e);
    LayerBuilder.File file=builder.file(NodesRegistrationSupport.BEANINFO_LOOKUP_PATH + "String_Node_Str" + pkgFilename+ "String_Node_Str");
    file.methodvalue("String_Node_Str",NodesRegistrationSupport.class.getName(),"String_Node_Str");
    file.stringvalue(NodesRegistrationSupport.PACKAGE,pkg);
    file.stringvalue("String_Node_Str",NodesRegistrationSupport.BeanInfoRegistration.class.getName());
    file.write();
  }
  return true;
}