Program: 99480
Project: 99480
Buggy source:
@Override public void run(){
  while (true) {
    if (stopFlag) {
      return;
    }
    if (inputEndpoint == null) {
      continue;
    }
    int length=usbDeviceConnection.bulkTransfer(inputEndpoint,readBuffer,readBuffer.length,0);
    if (length > 0) {
      byte[] read=new byte[length];
      System.arraycopy(readBuffer,0,read,0,length);
      Log.d(Constants.TAG,"String_Node_Str" + Arrays.toString(read));
      Message message=Message.obtain(receiveHandler);
      message.obj=read;
      if (!stopFlag) {
        receiveHandler.sendMessage(message);
      }
    }
  }
}

Fixed version (ground truth):
@Override public void run(){
  final UsbDeviceConnection deviceConnection=usbDeviceConnection;
  final UsbEndpoint usbEndpoint=inputEndpoint;
  final MidiInputDevice sender=MidiInputDevice.this;
  final OnMidiInputEventListener eventListener=midiEventListener;
  final byte[] bulkReadBuffer=new byte[BUFFER_LENGTH];
  byte[] readBuffer=new byte[BUFFER_LENGTH * 2];
  int readBufferSize=0;
  byte[] read=new byte[BUFFER_LENGTH * 2];
  ByteArrayOutputStream systemExclusive=null;
  while (!stopFlag) {
    int length=deviceConnection.bulkTransfer(usbEndpoint,bulkReadBuffer,BUFFER_LENGTH,0);
    if (length > 0) {
      System.arraycopy(bulkReadBuffer,0,readBuffer,readBufferSize,length);
      readBufferSize+=length;
      if (readBufferSize < 4) {
        continue;
      }
      final int readSize=readBufferSize / 4 * 4;
      System.arraycopy(readBuffer,0,read,0,readSize);
      int unreadSize=readBufferSize - readSize;
      if (unreadSize > 0) {
        System.arraycopy(readBuffer,readSize,readBuffer,0,unreadSize);
        readBufferSize=unreadSize;
      }
 else {
        readBufferSize=0;
      }
      int cable;
      int codeIndexNumber;
      int byte1;
      int byte2;
      int byte3;
      for (int i=0; i < readSize; i+=4) {
        cable=(read[i + 0] >> 4) & 0xf;
        codeIndexNumber=read[i + 0] & 0xf;
        byte1=read[i + 1] & 0xff;
        byte2=read[i + 2] & 0xff;
        byte3=read[i + 3] & 0xff;
switch (codeIndexNumber) {
case 0:
          eventListener.onMidiMiscellaneousFunctionCodes(sender,cable,byte1,byte2,byte3);
        break;
case 1:
      eventListener.onMidiCableEvents(sender,cable,byte1,byte2,byte3);
    break;
case 2:
{
    byte[] bytes=new byte[]{(byte)byte1,(byte)byte2};
    eventListener.onMidiSystemCommonMessage(sender,cable,bytes);
  }
break;
case 3:
{
byte[] bytes=new byte[]{(byte)byte1,(byte)byte2,(byte)byte3};
eventListener.onMidiSystemCommonMessage(sender,cable,bytes);
}
break;
case 4:
synchronized (this) {
if (systemExclusive == null) {
systemExclusive=new ByteArrayOutputStream();
}
}
synchronized (systemExclusive) {
systemExclusive.write(byte1);
systemExclusive.write(byte2);
systemExclusive.write(byte3);
}
break;
case 5:
if (systemExclusive == null) {
byte[] bytes=new byte[]{(byte)byte1};
eventListener.onMidiSystemCommonMessage(sender,cable,bytes);
}
 else {
synchronized (systemExclusive) {
systemExclusive.write(byte1);
eventListener.onMidiSystemExclusive(sender,cable,systemExclusive.toByteArray());
}
synchronized (this) {
systemExclusive=null;
}
}
break;
case 6:
if (systemExclusive != null) {
synchronized (systemExclusive) {
systemExclusive.write(byte1);
systemExclusive.write(byte2);
eventListener.onMidiSystemExclusive(sender,cable,systemExclusive.toByteArray());
}
synchronized (this) {
systemExclusive=null;
}
}
break;
case 7:
if (systemExclusive != null) {
synchronized (systemExclusive) {
systemExclusive.write(byte1);
systemExclusive.write(byte2);
systemExclusive.write(byte3);
eventListener.onMidiSystemExclusive(sender,cable,systemExclusive.toByteArray());
}
synchronized (this) {
systemExclusive=null;
}
}
break;
case 8:
eventListener.onMidiNoteOff(sender,cable,byte1 & 0xf,byte2,byte3);
break;
case 9:
if (byte3 == 0x00) {
eventListener.onMidiNoteOff(sender,cable,byte1 & 0xf,byte2,byte3);
}
 else {
eventListener.onMidiNoteOn(sender,cable,byte1 & 0xf,byte2,byte3);
}
break;
case 10:
eventListener.onMidiPolyphonicAftertouch(sender,cable,byte1 & 0xf,byte2,byte3);
break;
case 11:
eventListener.onMidiControlChange(sender,cable,byte1 & 0xf,byte2,byte3);
processRpnMessages(cable,byte1,byte2,byte3,sender);
break;
case 12:
eventListener.onMidiProgramChange(sender,cable,byte1 & 0xf,byte2);
break;
case 13:
eventListener.onMidiChannelAftertouch(sender,cable,byte1 & 0xf,byte2);
break;
case 14:
eventListener.onMidiPitchWheel(sender,cable,byte1 & 0xf,byte2 | (byte3 << 7));
break;
case 15:
eventListener.onMidiSingleByte(sender,cable,byte1);
break;
default :
break;
}
}
}
}
}