Program: 51123
Project: 51123
Buggy source:
<T>void processAnnotatedType(@Observes ProcessAnnotatedType<T> event){
  LOGGER.fine("String_Node_Str" + event.getAnnotatedType().getJavaClass().getName());
  AnnotatedType<T> type=event.getAnnotatedType();
  boolean classHasEncodedAnnotation=type.isAnnotationPresent(Encoded.class);
  Set<AnnotatedConstructor<T>> mustPatchConstructors=new HashSet<AnnotatedConstructor<T>>();
  Map<AnnotatedParameter<T>,PatchInformation> parameterToPatchInfoMap=new HashMap<AnnotatedParameter<T>,PatchInformation>();
  for (  AnnotatedConstructor<T> constructor : type.getConstructors()) {
    if (processAnnotatedConstructor(constructor,classHasEncodedAnnotation,parameterToPatchInfoMap)) {
      mustPatchConstructors.add(constructor);
    }
  }
  Set<AnnotatedField<T>> mustPatchFields=new HashSet<AnnotatedField<T>>();
  Map<AnnotatedField<T>,PatchInformation> fieldToPatchInfoMap=new HashMap<AnnotatedField<T>,PatchInformation>();
  outer:   for (  AnnotatedField<? super T> field : type.getFields()) {
    if (field.getDeclaringType() == type) {
      if (processAnnotatedField((AnnotatedField<T>)field,classHasEncodedAnnotation,fieldToPatchInfoMap)) {
        mustPatchFields.add((AnnotatedField<T>)field);
      }
    }
  }
  Set<AnnotatedMethod<T>> mustPatchMethods=new HashSet<AnnotatedMethod<T>>();
  Set<AnnotatedMethod<T>> setterMethodsWithoutInject=new HashSet<AnnotatedMethod<T>>();
  for (  AnnotatedMethod<? super T> method : type.getMethods()) {
    if (method.getDeclaringType() == type) {
      if (processAnnotatedMethod((AnnotatedMethod<T>)method,classHasEncodedAnnotation,parameterToPatchInfoMap,setterMethodsWithoutInject)) {
        mustPatchMethods.add((AnnotatedMethod<T>)method);
      }
    }
  }
  boolean typeNeedsPatching=!(mustPatchConstructors.isEmpty() && mustPatchFields.isEmpty() && mustPatchMethods.isEmpty());
  if (typeNeedsPatching) {
    AnnotatedTypeImpl<T> newType=new AnnotatedTypeImpl(type);
    Set<AnnotatedConstructor<T>> newConstructors=new HashSet<AnnotatedConstructor<T>>();
    for (    AnnotatedConstructor<T> constructor : type.getConstructors()) {
      AnnotatedConstructorImpl<T> newConstructor=new AnnotatedConstructorImpl(constructor,newType);
      if (mustPatchConstructors.contains(constructor)) {
        patchAnnotatedCallable(constructor,newConstructor,parameterToPatchInfoMap);
      }
 else {
        copyParametersOfAnnotatedCallable(constructor,newConstructor);
      }
      newConstructors.add(newConstructor);
    }
    Set<AnnotatedField<? super T>> newFields=new HashSet<AnnotatedField<? super T>>();
    for (    AnnotatedField<? super T> field : type.getFields()) {
      if (field.getDeclaringType() == type) {
        if (mustPatchFields.contains((AnnotatedField<T>)field)) {
          PatchInformation patchInfo=fieldToPatchInfoMap.get((AnnotatedField<T>)field);
          Set<Annotation> annotations=new HashSet<Annotation>();
          if (patchInfo.mustAddInject()) {
            annotations.add(injectAnnotationLiteral);
          }
          if (patchInfo.getSyntheticQualifier() != null) {
            annotations.add(patchInfo.getSyntheticQualifier());
            Annotation skippedQualifier=patchInfo.getParameter().getAnnotation();
            for (            Annotation annotation : field.getAnnotations()) {
              if (annotation != skippedQualifier) {
                annotations.add(annotation);
              }
            }
          }
 else {
            annotations.addAll(field.getAnnotations());
          }
          if (patchInfo.getAnnotation() != null) {
            annotations.add(patchInfo.getAnnotation());
          }
          newFields.add(new AnnotatedFieldImpl<T>(field,annotations,newType));
        }
 else {
          newFields.add(new AnnotatedFieldImpl<T>(field,newType));
        }
      }
 else {
        newFields.add(field);
      }
    }
    Set<AnnotatedMethod<? super T>> newMethods=new HashSet<AnnotatedMethod<? super T>>();
    for (    AnnotatedMethod<? super T> method : type.getMethods()) {
      if (method.getDeclaringType() == type) {
        if (mustPatchMethods.contains((AnnotatedMethod<T>)method)) {
          if (setterMethodsWithoutInject.contains((AnnotatedMethod<T>)method)) {
            Set<Annotation> annotations=new HashSet<Annotation>();
            annotations.add(injectAnnotationLiteral);
            for (            Annotation annotation : method.getAnnotations()) {
              if (!knownParameterQualifiers.contains(annotation.annotationType())) {
                annotations.add(annotation);
              }
            }
            AnnotatedMethodImpl<T> newMethod=new AnnotatedMethodImpl<T>(method,annotations,newType);
            patchAnnotatedCallable((AnnotatedMethod<T>)method,newMethod,parameterToPatchInfoMap);
            newMethods.add(newMethod);
          }
 else {
            AnnotatedMethodImpl<T> newMethod=new AnnotatedMethodImpl<T>(method,newType);
            patchAnnotatedCallable((AnnotatedMethod<T>)method,newMethod,parameterToPatchInfoMap);
            newMethods.add(newMethod);
          }
        }
 else {
          AnnotatedMethodImpl<T> newMethod=new AnnotatedMethodImpl<T>(method,newType);
          copyParametersOfAnnotatedCallable((AnnotatedMethod<T>)method,newMethod);
          newMethods.add(newMethod);
        }
      }
 else {
        newMethods.add(method);
      }
    }
    newType.setConstructors(newConstructors);
    newType.setFields(newFields);
    newType.setMethods(newMethods);
    event.setAnnotatedType(newType);
    LOGGER.fine("String_Node_Str" + type.getJavaClass());
  }
}

Fixed version (ground truth):
<T>void processAnnotatedType(@Observes ProcessAnnotatedType<T> event){
  LOGGER.fine("String_Node_Str" + event.getAnnotatedType().getJavaClass().getName());
  AnnotatedType<T> type=event.getAnnotatedType();
  boolean classHasEncodedAnnotation=type.isAnnotationPresent(Encoded.class);
  Set<AnnotatedConstructor<T>> mustPatchConstructors=new HashSet<AnnotatedConstructor<T>>();
  Map<AnnotatedParameter<? super T>,PatchInformation> parameterToPatchInfoMap=new HashMap<AnnotatedParameter<? super T>,PatchInformation>();
  for (  AnnotatedConstructor<T> constructor : type.getConstructors()) {
    if (processAnnotatedConstructor(constructor,classHasEncodedAnnotation,parameterToPatchInfoMap)) {
      mustPatchConstructors.add(constructor);
    }
  }
  Set<AnnotatedField<? super T>> mustPatchFields=new HashSet<AnnotatedField<? super T>>();
  Map<AnnotatedField<? super T>,PatchInformation> fieldToPatchInfoMap=new HashMap<AnnotatedField<? super T>,PatchInformation>();
  for (  AnnotatedField<? super T> field : type.getFields()) {
    if (processAnnotatedField(field,type.getJavaClass(),classHasEncodedAnnotation,fieldToPatchInfoMap)) {
      mustPatchFields.add(field);
    }
  }
  Set<AnnotatedMethod<? super T>> mustPatchMethods=new HashSet<AnnotatedMethod<? super T>>();
  Set<AnnotatedMethod<? super T>> setterMethodsWithoutInject=new HashSet<AnnotatedMethod<? super T>>();
  for (  AnnotatedMethod<? super T> method : type.getMethods()) {
    if (processAnnotatedMethod(method,type.getJavaClass(),classHasEncodedAnnotation,parameterToPatchInfoMap,setterMethodsWithoutInject)) {
      mustPatchMethods.add(method);
    }
  }
  boolean typeNeedsPatching=!(mustPatchConstructors.isEmpty() && mustPatchFields.isEmpty() && mustPatchMethods.isEmpty());
  if (typeNeedsPatching) {
    AnnotatedTypeImpl<T> newType=new AnnotatedTypeImpl(type);
    Set<AnnotatedConstructor<T>> newConstructors=new HashSet<AnnotatedConstructor<T>>();
    for (    AnnotatedConstructor<T> constructor : type.getConstructors()) {
      AnnotatedConstructorImpl<T> newConstructor=new AnnotatedConstructorImpl(constructor,newType);
      if (mustPatchConstructors.contains(constructor)) {
        patchAnnotatedCallable(constructor,newConstructor,parameterToPatchInfoMap);
      }
 else {
        copyParametersOfAnnotatedCallable(constructor,newConstructor);
      }
      newConstructors.add(newConstructor);
    }
    Set<AnnotatedField<? super T>> newFields=new HashSet<AnnotatedField<? super T>>();
    for (    AnnotatedField<? super T> field : type.getFields()) {
      if (mustPatchFields.contains(field)) {
        PatchInformation patchInfo=fieldToPatchInfoMap.get(field);
        Set<Annotation> annotations=new HashSet<Annotation>();
        if (patchInfo.mustAddInject()) {
          annotations.add(injectAnnotationLiteral);
        }
        if (patchInfo.getSyntheticQualifier() != null) {
          annotations.add(patchInfo.getSyntheticQualifier());
          Annotation skippedQualifier=patchInfo.getParameter().getAnnotation();
          for (          Annotation annotation : field.getAnnotations()) {
            if (annotation != skippedQualifier) {
              annotations.add(annotation);
            }
          }
        }
 else {
          annotations.addAll(field.getAnnotations());
        }
        if (patchInfo.getAnnotation() != null) {
          annotations.add(patchInfo.getAnnotation());
        }
        newFields.add(new AnnotatedFieldImpl<T>(field,annotations,newType));
      }
 else {
        newFields.add(new AnnotatedFieldImpl<T>(field,newType));
      }
    }
    Set<AnnotatedMethod<? super T>> newMethods=new HashSet<AnnotatedMethod<? super T>>();
    for (    AnnotatedMethod<? super T> method : type.getMethods()) {
      if (mustPatchMethods.contains((AnnotatedMethod<T>)method)) {
        if (setterMethodsWithoutInject.contains((AnnotatedMethod<T>)method)) {
          Set<Annotation> annotations=new HashSet<Annotation>();
          annotations.add(injectAnnotationLiteral);
          for (          Annotation annotation : method.getAnnotations()) {
            if (!knownParameterQualifiers.contains(annotation.annotationType())) {
              annotations.add(annotation);
            }
          }
          AnnotatedMethodImpl<T> newMethod=new AnnotatedMethodImpl<T>(method,annotations,newType);
          patchAnnotatedCallable(method,newMethod,parameterToPatchInfoMap);
          newMethods.add(newMethod);
        }
 else {
          AnnotatedMethodImpl<T> newMethod=new AnnotatedMethodImpl<T>(method,newType);
          patchAnnotatedCallable(method,newMethod,parameterToPatchInfoMap);
          newMethods.add(newMethod);
        }
      }
 else {
        AnnotatedMethodImpl<T> newMethod=new AnnotatedMethodImpl<T>(method,newType);
        copyParametersOfAnnotatedCallable(method,newMethod);
        newMethods.add(newMethod);
      }
    }
    newType.setConstructors(newConstructors);
    newType.setFields(newFields);
    newType.setMethods(newMethods);
    event.setAnnotatedType(newType);
    LOGGER.fine("String_Node_Str" + type.getJavaClass());
  }
}