# HG changeset patch
# User Liam Donovan <l.b.donovan@qmul.ac.uk>
# Date 1462270212 -3600
# Node ID 0f813ddf57736fc2abda7dfb0d6e342f607af6aa
# Parent  173978a5ab6a7e710657e3353d7371d1dae85232
Removed core files which use 'old' aux_tasks.

diff -r 173978a5ab6a -r 0f813ddf5773 core/Midi.cpp
--- a/core/Midi.cpp	Tue May 03 11:04:56 2016 +0100
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,259 +0,0 @@
-/*
- * Midi.cpp
- *
- *  Created on: 15 Jan 2016
- *      Author: giulio
- */
-
-#include "Midi.h"
-#include <fcntl.h>
-#include <errno.h>
-
-#define kMidiInput 0
-#define kMidiOutput 1
-
-
-midi_byte_t midiMessageStatusBytes[midiMessageStatusBytesLength]=
-{
-	0x80,
-	0x90,
-	0xA0,
-	0xB0,
-	0xC0,
-	0xD0,
-	0xE0,
-	0
-};
-
-unsigned int midiMessageNumDataBytes[midiMessageStatusBytesLength]={2, 2, 2, 2, 1, 1, 2, 0};
-
-bool Midi::staticConstructed;
-AuxiliaryTask Midi::midiInputTask;
-AuxiliaryTask Midi::midiOutputTask;
-std::vector<Midi *> Midi::objAddrs[2];
-
-int MidiParser::parse(midi_byte_t* input, unsigned int length){
-	unsigned int consumedBytes = 0;
-	for(unsigned int n = 0; n < length; n++){
-		consumedBytes++;
-		if(waitingForStatus == true){
-			int statusByte = input[n];
-			MidiMessageType newType = kmmNone;
-			if (statusByte >= 0x80){//it actually is a status byte
-				for(int n = 0; n < midiMessageStatusBytesLength; n++){ //find the statusByte in the array
-					if(midiMessageStatusBytes[n] == (statusByte&0xf0)){
-						newType = (MidiMessageType)n;
-						break;
-					}
-				}
-				elapsedDataBytes = 0;
-				waitingForStatus = false;
-				messages[writePointer].setType(newType);
-				messages[writePointer].setChannel((midi_byte_t)(statusByte&0xf));
-				consumedBytes++;
-			} else { // either something went wrong or it's a system message
-				continue;
-			}
-		} else {
-			messages[writePointer].setDataByte(elapsedDataBytes, input[n]);
-			elapsedDataBytes++;
-			if(elapsedDataBytes == messages[writePointer].getNumDataBytes()){
-				// done with the current message
-				// call the callback if available
-				if(isCallbackEnabled() == true){
-					messageReadyCallback(getNextChannelMessage(), callbackArg);
-				}
-				waitingForStatus = true;
-				writePointer++;
-				if(writePointer == messages.size()){
-					writePointer = 0;
-				}
-			}
-		}
-	}
-
-	return consumedBytes;
-};
-
-
-Midi::Midi(){
-	outputPort = -1;
-	inputPort = -1;
-	inputParser = 0;
-	size_t inputBytesInitialSize = 1000;
-	inputBytes.resize(inputBytesInitialSize);
-	outputBytes.resize(inputBytesInitialSize);
-	inputBytesWritePointer = 0;
-	inputBytesReadPointer = inputBytes.size() - 1;
-	if(!staticConstructed){
-		staticConstructor();
-	}
-}
-
-void Midi::staticConstructor(){
-	staticConstructed = true;
-	midiInputTask = BeagleRT_createAuxiliaryTask(Midi::midiInputLoop, 50, "MidiInput");
-	midiOutputTask = BeagleRT_createAuxiliaryTask(Midi::midiOutputLoop, 50, "MidiOutupt");
-}
-
-Midi::~Midi(){}
-
-void Midi::enableParser(bool enable){
-	if(enable == true){
-		delete inputParser;
-		inputParser = new MidiParser();
-		parserEnabled = true;
-	} else {
-		delete inputParser;
-		parserEnabled = false;
-	}
-}
-
-void Midi::midiInputLoop(){
-	for(unsigned int n = 0; n < objAddrs[kMidiInput].size(); n++){
-		objAddrs[kMidiInput][n] -> readInputLoop();
-	}
-}
-
-void Midi::midiOutputLoop(){
-	for(unsigned int n = 0; n < objAddrs[kMidiOutput].size(); n++){
-		objAddrs[kMidiOutput][n] -> writeOutputLoop();
-	}
-}
-
-void Midi::readInputLoop(){
-	while(!gShouldStop){
-		int maxBytesToRead = inputBytes.size() - inputBytesWritePointer;
-		int ret = read(inputPort, &inputBytes[inputBytesWritePointer], sizeof(midi_byte_t)*maxBytesToRead);
-		if(ret < 0){
-			if(errno != EAGAIN){ // read() would return EAGAIN when no data are available to read just now
-				rt_printf("Error while reading midi %d\n", errno);
-			}
-			usleep(1000);
-			continue;
-		}
-		inputBytesWritePointer += ret;
-		if(inputBytesWritePointer == inputBytes.size()){ //wrap pointer around
-			inputBytesWritePointer = 0;
-		}
-
-		if(parserEnabled == true && ret > 0){ // if the parser is enabled and there is new data, send the data to it
-			int input;
-			while((input=_getInput()) >= 0){
-				midi_byte_t inputByte = (midi_byte_t)(input);
-				inputParser->parse(&inputByte, 1);
-			}
-		}
-		if(ret < maxBytesToRead){ //no more data to retrieve at the moment
-			usleep(1000);
-		} // otherwise there might be more data ready to be read (we were at the end of the buffer), so don't sleep
-	}
-}
-
-void Midi::writeOutputLoop(){
-	while(!gShouldStop){
-		usleep(1000);
-		int length = outputBytesWritePointer - outputBytesReadPointer;
-		if(length < 0){
-			length = outputBytes.size() - outputBytesReadPointer;
-		}
-		if(length == 0){ //nothing to be written
-			continue;
-		}
-		int ret;
-		ret = write(outputPort, &outputBytes[outputBytesReadPointer], sizeof(midi_byte_t)*length);
-		if(ret < 0){ //error occurred
-			rt_printf("error occurred while writing: %d\n", errno);
-			usleep(10000); //wait before retrying
-			continue;
-		}
-	}
-}
-int Midi::readFrom(int port){
-	objAddrs[kMidiInput].push_back(this);
-	inputPort = open("/dev/midi1", O_RDONLY | O_NONBLOCK | O_NOCTTY);
-	if(inputPort < 0){
-		return -1;
-	} else {
-		printf("Reading from Midi port %d\n", port);
-		BeagleRT_scheduleAuxiliaryTask(midiInputTask);
-		return 1;
-	}
-}
-
-int Midi::writeTo(int port){
-	objAddrs[kMidiOutput].push_back(this);
-	outputPort = open("/dev/midi1", O_WRONLY, 0);
-	if(outputPort < 0){
-		return -1;
-	} else {
-		printf("Writing to Midi port %d\n", port);
-		BeagleRT_scheduleAuxiliaryTask(midiOutputTask);
-		return 1;
-	}
-}
-
-int Midi::_getInput(){
-	if(inputPort < 0)
-		return -2;
-	if(inputBytesReadPointer == inputBytesWritePointer){
-		return -1; // no bytes to read
-	}
-	midi_byte_t inputMessage = inputBytes[inputBytesReadPointer++];
-	if(inputBytesReadPointer == inputBytes.size()){ // wrap pointer
-		inputBytesReadPointer = 0;
-	}
-	return inputMessage;
-}
-
-int Midi::getInput(){
-	if(parserEnabled == true) {
-		return -3;
-	}
-	return _getInput();
-}
-
-MidiParser* Midi::getParser(){
-	if(parserEnabled == false){
-		return 0;
-	}
-	return inputParser;
-};
-
-int Midi::writeOutput(midi_byte_t byte){
-	return writeOutput(&byte, 1);
-}
-
-int Midi::writeOutput(midi_byte_t* bytes, unsigned int length){
-	int ret = write(outputPort, bytes, length);
-	if(ret < 0)
-		return -1;
-	else
-		return 1;
-}
-
-MidiChannelMessage::MidiChannelMessage(){};
-MidiChannelMessage::MidiChannelMessage(MidiMessageType type){
-	setType(type);
-};
-MidiChannelMessage::~MidiChannelMessage(){};
-MidiMessageType MidiChannelMessage::getType(){
-	return _type;
-};
-int MidiChannelMessage::getChannel(){
-	return _channel;
-};
-//int MidiChannelMessage::set(midi_byte_t* input);
-//
-//int MidiControlChangeMessage ::getValue();
-//int MidiControlChangeMessage::set(midi_byte_t* input){
-//	channel = input[0];
-//	number = input[1];
-//	value = input[2];
-//	return 3;
-//}
-
-//int MidiNoteMessage::getNote();
-//int MidiNoteMessage::getVelocity();
-
-//midi_byte_t MidiProgramChangeMessage::getProgram();
diff -r 173978a5ab6a -r 0f813ddf5773 core/NetworkSend.cpp
--- a/core/NetworkSend.cpp	Tue May 03 11:04:56 2016 +0100
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,257 +0,0 @@
-#include "NetworkSend.h"
-
-#ifdef USE_JUCE
-#else
-//initialize the static members of NetworkSend
-bool NetworkSend::staticConstructed=false;
-int NetworkSend::sleepTimeMs;
-bool NetworkSend::threadIsExiting;
-bool NetworkSend::threadRunning;
-std::vector<NetworkSend*> NetworkSend::objAddrs(0);
-AuxiliaryTask NetworkSend::sendDataTask=NULL;
-
-void sendData(){
-	NetworkSend::run();
-}
-void NetworkSend::staticConstructor(){
-	if(staticConstructed==true)
-		return;
-	staticConstructed=true;
-	threadIsExiting=false;
-	threadRunning=false;
-	sendDataTask = BeagleRT_createAuxiliaryTask(::sendData, 95, "sendDataTask"); //TODO: allow variable priority
-}
-void NetworkSend::sendAllData(){
-	for(unsigned int n=0; n<NetworkSend::objAddrs.size(); n++){
-		NetworkSend::objAddrs[n]->sendData();
-	}
-}
-int NetworkSend::getNumInstances(){
-	return objAddrs.size();
-}
-void NetworkSend::startThread(){
-	BeagleRT_scheduleAuxiliaryTask(sendDataTask);
-}
-void NetworkSend::stopThread(){
-	threadIsExiting=true;
-}
-bool NetworkSend::threadShouldExit(){
-	return(gShouldStop || threadIsExiting);
-}
-bool NetworkSend::isThreadRunning(){
-	return threadRunning;
-}
-#endif /* USE_JUCE */
-
-#ifdef USE_JUCE
-NetworkSend::NetworkSend(const String &threadName):
-		Thread(threadName)
-#else
-NetworkSend::NetworkSend()
-#endif /* USE_JUCE */
-{
-	channel.buffers=NULL;
-	channel.doneOnTime=NULL;
-	channel.readyToBeSent=NULL;
-	channel.enabled=false;
-	sleepTimeMs=2; //This should actually be initialized in the staticConstructor for non-Juce code, but doing it here makes it more portable
-	channel.sampleCount=0;
-}
-
-NetworkSend::~NetworkSend(){
-#ifdef USE_JUCE
-	stopThread(1000);
-#else
-	stopThread();
-	for(unsigned int n=0; n<objAddrs.size(); n++){ //keep track of deleted instances;
-		if(objAddrs[n]==this){
-			objAddrs.erase(objAddrs.begin()+n);
-			break;
-		}
-	}
-#endif
-	dealloc();
-}
-void NetworkSend::dealloc(){
-	channel.enabled=false;
-	if(channel.buffers!=NULL){
-		for(int n=0; n<channel.numBuffers; n++){
-			free(channel.buffers[n]);
-			channel.buffers[n]=NULL;
-		}
-		free(channel.buffers);
-		channel.buffers=NULL;
-	}
-	free(channel.readyToBeSent);
-	channel.readyToBeSent=NULL;
-	free(channel.doneOnTime);
-	channel.doneOnTime=NULL;
-}
-void NetworkSend::cleanup(){
-	dealloc();
-}
-
-void NetworkSend::setup(float aSampleRate, int blockSize, int aChannelNumber, int aPort, const char *aServer){
-#ifdef USE_JUCE
-#else
-	staticConstructor(); //FIXME: ideally this should be in the constructor, but this is not currently possible
-						//because of limitations in BeagleRT_createAuxiliaryTask()
-	//keep track of added active instances
-	objAddrs.push_back(this);//TODO: this line should be in the constructor, but something weird happens if
-	// an instance of NetworkSend is then declared globally: the constructor gets called,
-	// and objAddrs.size()==1 but when you get to setup, objAddrs.size() has reverted back to 0, without
-	// any destructor being called in between ... Have a look here
-	// http://stackoverflow.com/questions/7542054/global-vector-emptying-itself-between-calls .
-	// and maybe use accessor function instead of global, as was done in #1374
-#endif /* USE_JUCE */
-	cleanup();
-	int numSamples=blockSize*4>4*channel.bufferLength ? blockSize*4 : 4*channel.bufferLength;
-	channel.numBuffers= (1+numSamples/channel.bufferLength) * 3; //the +1 takes the ceil() of the division
-	channel.buffers=(float**)malloc(channel.numBuffers*sizeof(float*));
-	printf("NumBuffers: %d\n", channel.numBuffers);
-	if(channel.buffers==NULL)
-		return;
-	for(int n=0; n<channel.numBuffers; n++){
-		channel.buffers[n]=(float*)malloc(channel.bufferLength*sizeof(float));
-		if(channel.buffers[n]==NULL)
-			return;
-	}
-	channel.readyToBeSent=(bool*)malloc(channel.numBuffers*sizeof(bool));
-	channel.doneOnTime=(bool*)malloc(channel.numBuffers*sizeof(bool));
-	for(int n=0; n<channel.numBuffers; n++){
-		channel.readyToBeSent[n]=false;
-		channel.doneOnTime[n]=true;
-	}
-	if(channel.readyToBeSent==NULL || channel.doneOnTime==NULL)
-		return;
-	channel.writePointer=channel.headerLength;
-	channel.writeBuffer=0;
-	channel.readBuffer=0;
-	setChannelNumber(aChannelNumber);
-	setPort(aPort); //TODO: check for the return value
-	setServer(aServer); //TODO: check for the return value
-	printf("Channel %d is sending messages to: %s:%d at %fHz\n", getChannelNumber(), aServer, aPort, aSampleRate);
-	channel.enabled=true;
-}
-
-void NetworkSend::log(float value){ //TODO: add a vectorized version of this method
-	if(channel.enabled==false)
-		return;
-	if(channel.writePointer==channel.bufferLength){ // when the buffer is filled ...
-		channel.readyToBeSent[channel.writeBuffer]=true; // flag it as such
-//		printf("Scheduling for send %d\n",(int)channel.buffers[channel.writeBuffer][channel.headerTimestampIndex]);
-		channel.writePointer=channel.headerLength; //reset the writePointer
-		channel.writeBuffer=(channel.writeBuffer+1); //switch buffer
-		if(channel.writeBuffer==channel.numBuffers) // and wrap it
-            channel.writeBuffer=0;
-//		printf("WriteBuffer:%d\n", channel.writeBuffer);
-		if(channel.doneOnTime[channel.writeBuffer]==false){ //check if this buffer's last sending has completed on time ...
-			printf("NetworkSend buffer underrun. timestamp: %d :-{\n",
-					(int)channel.buffers[channel.writeBuffer][channel.headerTimestampIndex]);
-		}
-		channel.doneOnTime[channel.writeBuffer]=false; // ... and then reset the flag
-#ifdef USE_JUCE
-		if(isThreadRunning()==false){
-			startThread(10);
-		}
-#else
-		if(isThreadRunning()==false){
-			startThread();
-		}
-#endif /* USE_JUCE */
-	}
-	if(channel.writePointer==channel.headerLength){ // we are about to start writing in the buffer, let's set the header
-		//set dynamic header values here. Static values are set in setup() and setChannelNumber().
-		channel.buffers[channel.writeBuffer][channel.headerTimestampIndex]=(float)channel.sampleCount; //timestamp
-		channel.sampleCount++;
-		//add here more header fields
-	}
-    channel.buffers[channel.writeBuffer][channel.writePointer++]=value;
-//	sampleCount++;
-};
-
-void NetworkSend::setServer(const char *aServer){
-#ifdef USE_JUCE
-	remoteHostname=String::fromUTF8(aServer);
-#else
-	udpClient.setServer(aServer);
-#endif /* USE_JUCE */
-}
-void NetworkSend::setPort(int aPort){
-#ifdef USE_JUCE
-	remotePortNumber=aPort;
-#else
-	udpClient.setPort(aPort);
-#endif /* USE_JUCE */
-}
-
-void NetworkSend::setChannelNumber(int aChannelNumber){
-	channel.channelNumber=aChannelNumber;
-	for(int n=0; n < channel.numBuffers; n++){ //initialize the header
-		channel.buffers[n][channel.headerChannelIndex]=channel.channelNumber;
-		//add here more static header fields
-	}
-};
-int NetworkSend::getChannelNumber(){
-	return channel.channelNumber;
-};
-
-int NetworkSend::getTimestamp(){
-	return channel.buffers[channel.readBuffer][channel.headerTimestampIndex];
-}
-
-void NetworkSend::sendData(){
-	if(channel.enabled==false)
-		return;
-	while(channel.readyToBeSent[channel.readBuffer]==true){
-		channel.readyToBeSent[channel.readBuffer]=false;
-		void* sourceBuffer=channel.buffers[channel.readBuffer];
-//		printf("Trying to send timestamp %d\n",(int)((float*)sourceBuffer)[channel.headerTimestampIndex]);
-//		printf("ReadBuffer:%d\n", channel.readBuffer);
-		unsigned int numBytesToSend=NETWORK_AUDIO_BUFFER_SIZE*sizeof(float);
-		//TODO: call waitUntilReady before trying to write/send, to avoid blocks! (OR NOT?)
-#ifdef USE_JUCE
-		if(1==udpClient.waitUntilReady(0, 5)){
-			udpClient.write(remoteHostname, remotePortNumber, sourceBuffer, numBytesToSend);
-			channel.doneOnTime[channel.readBuffer]=true;
-			//  printf ("Sent timestamp: %d\n", (int)((float*)sourceBuffer)[1]);
-		} else {
-			//  printf ("Not ready timestamp: %d\n", (int)((float*)sourceBuffer)[1]);
-		}
-#else
-		udpClient.send(sourceBuffer, numBytesToSend);
-//		printf("sent sourceBuffer: %d, channel: %f, timestamp: %f\n", channel.readBuffer, channel.buffers[channel.readBuffer][0],
-//				channel.buffers[channel.readBuffer][1]);
-		channel.doneOnTime[channel.readBuffer]=true;
-#endif /* USE_JUCE */
-		channel.readBuffer++;
-		if(channel.readBuffer==channel.numBuffers)
-			channel.readBuffer=0;
-	}
-}
-
-void NetworkSend::run(){
-#ifdef USE_JUCE
-	//  std::chrono::high_resolution_clock::time_point t1;
-    //  std::chrono::high_resolution_clock::time_point t2;
-    //  std::chrono::high_resolution_clock::time_point t3;
-	while(threadShouldExit()==false){
-		//  t3 = std::chrono::high_resolution_clock::now();
-		//  t1 = std::chrono::high_resolution_clock::now();
-		sendData();
-		//  t2 = std::chrono::high_resolution_clock::now();
-		//  auto duration1 = std::chrono::duration_cast<std::chrono::microseconds>( t3 - t1 ).count();
-		//  auto duration2 = std::chrono::duration_cast<std::chrono::microseconds>( t2 - t1 ).count();
-		//  if(duration2>0)
-			//  std::cout << "Duration is: " << duration2 <<". Whole loop is: " << duration1 << "\n"; 
-		usleep(1000);
-	}
-#else
-	threadRunning=true;
-	while(threadShouldExit()==false){
-		sendAllData();
-		usleep(sleepTimeMs*1000);
-	}
-	threadRunning=false;
-#endif
-}
diff -r 173978a5ab6a -r 0f813ddf5773 core/ReceiveAudioThread.cpp
--- a/core/ReceiveAudioThread.cpp	Tue May 03 11:04:56 2016 +0100
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,313 +0,0 @@
-#include <ReceiveAudioThread.h>
-
-#ifdef USE_JUCE
-#else
-//initialise static members
-bool ReceiveAudioThread::staticConstructed=false;
-AuxiliaryTask ReceiveAudioThread::receiveDataTask=NULL;
-std::vector<ReceiveAudioThread *> ReceiveAudioThread::objAddrs(0);
-bool ReceiveAudioThread::threadRunning;
-bool ReceiveAudioThread::threadIsExiting;
-int ReceiveAudioThread::sleepTime;
-
-void receiveData(){
-	ReceiveAudioThread::run();
-}
-void ReceiveAudioThread::staticConstructor(){
-	if(staticConstructed==true)
-		return;
-	staticConstructed=true;
-    threadIsExiting=false;
-	receiveDataTask=BeagleRT_createAuxiliaryTask(receiveData, 90, "receiveDataTask"); //TODO: allow different priorities
-}
-#endif /* USE_JUCE */
-
-void ReceiveAudioThread::dealloc(){
-    free(buffer);
-    buffer=NULL;
-    free(stackBuffer);
-    stackBuffer=NULL;
-}
-void ReceiveAudioThread::wrapWritePointer(){
-    //this is not quite a simple wrapping as you would do in a circular buffer,
-    //as there is no guarantee the buffer will be full at all times, given that there must alwas be enough space at the end of it
-    //to hold a full payload
-    // lastValidPointer indicates the last pointer in the buffer containing valid data
-    //
-    if(writePointer+payloadLength+headerLength>bufferLength){ //if we are going to exceed the length of the buffer with the next reading
-        //  lastValidPointer=writePointer+headerLength; //remember where the last valid data are
-        //  for(int n=headerLength;n<lastValidPointer; n++){
-            //  fprintf(fd2, "%f\n",buffer[n]); //DEBUG
-        //  }
-    	writePointer=0; //and reset to beginning of the buffer
-    }
-}
-void ReceiveAudioThread::pushPayload(int startIndex){ //backup the payload samples that will be overwritten by the new header
-    for(int n=0; n<headerLength; n++){
-        stackBuffer[n]=buffer[startIndex+n];
-    }
-}
-void ReceiveAudioThread::popPayload(int startIndex){
-    for(int n=0; n<headerLength; n++){
-        buffer[startIndex+n]=stackBuffer[n];
-    }        
-}
-
-int ReceiveAudioThread::readUdpToBuffer(){
-
-	if(listening==false || bufferReady==false)
-        return 0;
-    if(writePointer<0)
-        return 0;
-    if(socket.waitUntilReady(true, waitForSocketTime)){// TODO: if waitForSocketTime here is >>5, the
-    	// destructor (always or sometimes) never actually gets called, despite run() returns ...see issue #1381
-#ifdef USE_JUCE
-#else
-		lastTime=rt_timer_read();
-//        rt_printf("lastTimeread= %llu\n", lastTime);
-#endif /* USE_JUCE */
-        pushPayload(writePointer); //backup headerLength samples. This could be skipped if writePointer==0
-        //read header+payload
-        int numBytes=socket.read(buffer+writePointer, bytesToRead, true); //read without waiting.
-            //TODO: (if using variable-length payload) validate the actual numBytes read against the size declared in the header
-        if(numBytes<0){
-            printf("error numBytes1\n");
-            return -3; //TODO: something went wrong, you have to discard the rest of the packet!
-        }
-        if(numBytes==0){//TODO: this should not happen unless you actually receive a packet of size zero (is it at all possible?)
-//        	printf("received 0 bytes\n");
-        	return 0;
-        }
-        if(numBytes != bytesToRead){ //this is equivalent to (numBytes<bytesToRead)
-            printf("error numBytes2: %d\n", numBytes);
-            return -4; //TODO: something went wrong, less bytes than expected in the payload.
-        }
-        if(channel!=(int)buffer[writePointer]){
-//        	printf("I am channel %d, but I received data for channel %d\n", channel, (int)buffer[writePointer]);
-        	return -5;
-        }
-        if(buffer[writePointer+1]!=timestamp+1)
-        	printf("missing a timestamp: %d\n",timestamp+1);
-        timestamp=buffer[writePointer+1];
-//        rt_printf("Received a message of length %d, it was on channel %d and timestamp %d\n", numBytes, (int)buffer[writePointer], (int)buffer[writePointer+1]);
-
-        popPayload(writePointer); //restore headerLength payload samples. This could be skipped if writePointer==0
-        //even though we just wrote (payloadLength+headerLength) samples in the buffer,
-        //we only increment by payloadLength. This way, next time a socket.read is performed, we will
-        //backup the last headerLength samples that we just wrote and we will overwrite them with
-        //the header from the new read. After parsing the header we will then restore the backed up samples.
-        //This way we guarantee that, apart from the first headerLength samples, buffer is a circular buffer!
-        writePointer+=payloadLength;
-        wrapWritePointer();
-        return numBytes;
-    }
-    return 0; //timeout occurred
-}
-//USE_JUCE    Thread(threadName),
-#ifdef USE_JUCE
-ReceiveAudioThread::ReceiveAudioThread(const String &threadName) :
-			Thread(threadName),
-#else
-ReceiveAudioThread::ReceiveAudioThread() :
-#endif /* USE_JUCE */
-	socket(0),
-    listening(false),
-    bufferReady(false),
-    buffer(NULL),
-    stackBuffer(NULL),
-    bufferLength(0),
-    lastValidPointer(0),
-    waitForSocketTime(5),
-#ifdef USE_JUCE
-    threadPriority(5)
-#else
-    threadPriority(88)
-#endif /* USE_JUCE */
-{};
-ReceiveAudioThread::~ReceiveAudioThread(){
-#ifdef USE_JUCE
-	stopThread(1000);
-#else
-	stopThread();
-	while(threadRunning){
-		usleep(sleepTime*2);	//wait for thread to stop
-		std::cout<< "Waiting for receiveAudioTask to stop" << std::endl;
-	}
-#endif /* USE_JUCE */
-	//TODO: check if thread stopped, otherwise kill it before dealloc
-    dealloc();
-}
-void ReceiveAudioThread::init(int aPort, int aSamplesPerBlock, int aChannel){
-  dealloc();
-#ifdef USE_JUCE
-#else
-  staticConstructor();
-  objAddrs.push_back(this);//TODO: this line should be in the constructor
-#endif /* USE_JUCE */
-  bindToPort(aPort);
-  channel=aChannel;
-  printf("Channel %d is receiving on port %d\n",aChannel, aPort);
-  //  fd=fopen("output.m","w"); //DEBUG
-  //  fprintf(fd,"var=["); //DEBUG
-  headerLength=2;
-  payloadLength=300; //TODO: make sure that payloadLength and headerLength are the same as the client is sending.
-  bufferLength=10 * std::max(headerLength+(payloadLength*4), headerLength+(aSamplesPerBlock*4)); //there are many considerations that can be done here ...
-                      //We keep a headerLength padding at the beginning of the array to allow full reads from the socket
-  buffer=(float*)malloc(sizeof(float)*bufferLength);
-  if(buffer==NULL) // something wrong
-    return;
-  lastValidPointer=headerLength+ ((bufferLength-headerLength)/payloadLength)*payloadLength;
-  memset(buffer,0,bufferLength*sizeof(float));
-  stackBuffer=(float*)malloc(sizeof(float)*headerLength);
-  if(stackBuffer==NULL) // something wrong
-      return;
-  bufferReady=true;
-  bytesToRead=sizeof(float)*(payloadLength + headerLength);
-  writePointer=-1;
-  readPointer=0;
-  sleepTime=payloadLength/(float)44100 /4.0; //set sleepTime so that you do not check too often or too infrequently
-  timestamp=0;
-#ifdef USE_JUCE
-  startThread(threadPriority);
-#else
-  //TODO: the thread cannot be started here at the moment because init() is called in setup(), where tasks cannot be scheduled
-#endif /* USE_JUCE */
-}
-
-void ReceiveAudioThread::bindToPort(int aPort){
-    listening=socket.bindToPort(aPort);
-#ifdef USE_JUCE
-#else
-    if(listening==false) //this condition is valid also for USE_JUCE, but we do not printf in USE_JUCE
-    	printf("Could not bind to port %d\n",aPort);
-#endif /* USE_JUCE */
-}
-bool ReceiveAudioThread::isListening(){
-    return listening;
-}
-float* ReceiveAudioThread::getCurrentBuffer(int length){ // NOTE: this cannot work all the time unless samplesPerBuffer and payloadLength are multiples
-    //TODO: make it return the number of samples actually available at the specified location
-    if(isListening()==false || length>bufferLength)
-        return NULL;
-    readPointer+=length;
-    if(readPointer>lastValidPointer){
-        readPointer=headerLength;
-    }
-    return buffer+(int)readPointer;
-};
-int ReceiveAudioThread::getSamplesSrc(float *destination, int length,
-		float samplingRateRatio, int numChannelsInDestination,
-		int channelToWriteTo)
-{
-    if (!(samplingRateRatio>0 && samplingRateRatio<=2))
-        return -2;
-    if(isListening()==false)
-        return -1;
-    static int numCalls=0;
-    if(writePointer<0 /*|| (numCalls&16383)==0*/){ //if writePointer has not been initalized yet ...
-#ifdef USE_JUCE
-#else //debug
-    	readPointer = headerLength;
-#endif /* USE_JUCE */
-    	// this cumbersome line means: start writing at a position which is as close as possible
-    	// to the center of the buffer, but still is aligned to (payloadLength*x)+headerLength
-    	// thus allowing buffering to allow clock drift to go either way
-        writePointer = headerLength + ((bufferLength-headerLength)/payloadLength/2)*payloadLength;
-                            // This will help keeping them in sync.
-                            //TODO: handle what happens when the remote stream is interrupted and then restarted
-        printf("write pointer inited at: %d\n", writePointer);
-    }
-    numCalls++;
-    if(length>lastValidPointer) { 
-        //not enough samples available, we fill the buffer with what is available, but the destination buffer will not be filled completely
-        //at this very moment the other thread might be writing at most one payload into the buffer.
-        //To avoid a race condition, we need to let alone the buffer where we are currently writing
-        //as writing the payload also temporarily overwrites the previous headerLength samples, we need to account for them as well
-        //TODO: This assumes that the writePointer and readPointer do not drift. When doing clock synchronization we will find out that it is not true!
-        length=lastValidPointer-payloadLength-headerLength;
-        if(length<0) //no samples available at all! 
-            return 0;
-    }
-    for(int n=0; n<length; n++){
-        destination[n*numChannelsInDestination+channelToWriteTo]=buffer[(int)(0.5+readPointer)];//simple ZOH non-interpolation (nearest neighbour)
-        //  fprintf(fd,"%f, %d, %f;\n",readPointer,writePointer,destination[n]); //DEBUG
-        readPointer+=samplingRateRatio;
-        if((int)(0.5+readPointer)>=lastValidPointer){
-            readPointer=readPointer-lastValidPointer+headerLength;
-        }
-    }
-    return length;
-}
-int ReceiveAudioThread::getSamplesSrc(float *destination, int length, float samplingRateRatio){
-	return getSamplesSrc(destination, length, samplingRateRatio, 1,0);
-	// TODO: rewriting this so that it does not call the override method we can save a multiply and add
-	// for each sample.
-}
-bool ReceiveAudioThread::isBufferReady(){
-    return bufferReady;
-}
-#ifdef USE_JUCE
-#else
-void ReceiveAudioThread::startThread(){
-	BeagleRT_scheduleAuxiliaryTask(receiveDataTask);
-}
-void ReceiveAudioThread::stopThread(){
-	threadIsExiting=true;
-}
-bool ReceiveAudioThread::threadShouldExit(){
-	return(gShouldStop || threadIsExiting );
-}
-RTIME ReceiveAudioThread::getLastTime(){
-	return lastTime;
-}
-#endif /* USE_JUCE */
-int ReceiveAudioThread::getTimestamp(){
-	return timestamp;
-}
-void ReceiveAudioThread::run(){
-    //  fd2=fopen("buffer.m","w"); //DEBUG
-    //  fprintf(fd2, "buf=["); //DEBUG
-	threadRunning=true;
-	int maxCount=10;
-	int count=0;
-	// Clean the socket from anything that is currently in it.
-#ifdef USE_JUCE
-	// this is borrowed from BeagleRT's UdpServer class.
-	int n;
-	do {
-		float waste;
-		if(socket.waitUntilReady(true, 0)==0)
-			break;
-		n=socket.read((void*)&waste, sizeof(float), false);
-		count++;
-		if(n<0){
-			printf("error\n");
-			break;
-		}
-		printf("n: %d\n",n);
-	} while (n>0 && (maxCount<=0 || count<maxCount));
-#else
-	for(unsigned int n=0; n<objAddrs.size(); n++){
-		count=objAddrs[n]->socket.empty(maxCount);
-	}
-#endif /* USE_JUCE */
-	printf("socket emptied with %d reads\n", count);
-
-    while(!threadShouldExit()){ //TODO: check that the socket buffer is empty before starting
-#ifdef USE_JUCE
-        readUdpToBuffer(); // read into the oldBuffer
-        sleep(sleepTime);
-#else
-		for(unsigned int n=0; n<ReceiveAudioThread::objAddrs.size(); n++){
-			ReceiveAudioThread::objAddrs[n]->readUdpToBuffer();
-		}
-		usleep(sleepTime); //TODO: use rt_task_sleep instead
-#endif /* USE_JUCE */
-    }
-    threadRunning=false;
-    printf("Thread is not running \n");
-    //  fprintf(fd,"];readPointer,writePointer,lastValidPointer,destination]=deal(var(:,1), var(:,2), var(:,3), var(:,4));"); //DEBUG
-    //  fclose(fd);//DEBUG
-    //  fprintf(fd2,"];");//DEBUG
-    //  fclose(fd2); //DEBUG
-}
diff -r 173978a5ab6a -r 0f813ddf5773 core/WriteFile.cpp
--- a/core/WriteFile.cpp	Tue May 03 11:04:56 2016 +0100
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,296 +0,0 @@
-/*
- * WriteFile.cpp
- *
- *  Created on: 5 Oct 2015
- *      Author: giulio
- */
-
-#include "WriteFile.h"
-//initialise static members
-bool WriteFile::staticConstructed=false;
-AuxiliaryTask WriteFile::writeAllFilesTask=NULL;
-std::vector<WriteFile *> WriteFile::objAddrs(0);
-bool WriteFile::threadRunning;
-bool WriteFile::threadIsExiting;
-int WriteFile::sleepTimeMs;
-
-void WriteFile::staticConstructor(){
-	if(staticConstructed==true)
-			return;
-	staticConstructed=true;
-	threadIsExiting=false;
-	threadRunning=false;
-	writeAllFilesTask = BeagleRT_createAuxiliaryTask(WriteFile::run, 60, "writeAllFilesTask");
-}
-
-WriteFile::WriteFile(){
-	buffer = NULL;
-	format = NULL;
-	header = NULL;
-	footer = NULL;
-	stringBuffer = NULL;
-};
-
-void WriteFile::init(const char* filename){ //if you do not call this before using the object, results are undefined
-	file = fopen(filename, "w");
-	variableOpen = false;
-	lineLength = 0;
-	setEcho(false);
-	bufferLength = 0;
-	textReadPointer = 0;
-	binaryReadPointer = 0;
-	writePointer = 0;
-	sleepTimeMs = 1;
-	stringBufferLength = 1000;
-	stringBuffer = (char*)malloc(sizeof(char) * (stringBufferLength));
-	setHeader("variable=[\n");
-	setFooter("];\n");
-	staticConstructor(); //TODO: this line should be in the constructor, but cannot be because of a bug in BeagleRT
-	objAddrs.push_back(this);
-	echoedLines = 0;
-	echoPeriod = 1;
-}
-
-void WriteFile::setFileType(WriteFileType newFileType){
-	fileType = newFileType;
-	if(fileType == kBinary)
-		setLineLength(1);
-}
-void WriteFile::setEcho(bool newEcho){
-	echo=newEcho;
-}
-void WriteFile::setEchoInterval(int newEchoPeriod){
-	echoPeriod = newEchoPeriod;
-	if(echoPeriod != 0)
-		echo = true;
-	else
-		echo = false;
-}
-void WriteFile::print(const char* string){
-	if(echo == true){
-		echoedLines++;
-		if (echoedLines >= echoPeriod){
-			echoedLines = 0;
-			printf("%s", string);
-		}
-	}
-	if(file != NULL && fileType != kBinary){
-		fprintf(file, "%s", string);
-	}
-}
-
-void WriteFile::writeLine(){
-	if(echo == true || fileType != kBinary){
-		int stringBufferPointer = 0;
-		for(unsigned int n = 0; n < formatTokens.size(); n++){
-			int numOfCharsWritten = snprintf( &stringBuffer[stringBufferPointer], stringBufferLength - stringBufferPointer,
-								formatTokens[n], buffer[textReadPointer]);
-			stringBufferPointer += numOfCharsWritten;
-			textReadPointer++;
-			if(textReadPointer >= bufferLength){
-				textReadPointer -= bufferLength;
-			}
-		}
-		print(stringBuffer);
-	}
-}
-
-void WriteFile::setLineLength(int newLineLength){
-	lineLength=newLineLength;
-	free(buffer);
-	bufferLength = lineLength * (int)1e7; // circular buffer of length 1e7 lineLenghts
-	buffer = (float*)malloc(sizeof(float) * bufferLength);
-}
-
-void WriteFile::log(float value){
-	if(fileType != kBinary && (format == NULL || buffer == NULL))
-		return;
-	buffer[writePointer] = value;
-	writePointer++;
-	if(writePointer == bufferLength){
-		writePointer = 0;
-	}
-	if((fileType == kText && writePointer == textReadPointer - 1) ||
-			(fileType == kBinary && writePointer == binaryReadPointer - 1)){
-		fprintf(stderr, "%d %d WriteFile: pointers crossed, you should probably slow down your writing to disk\n", writePointer, binaryReadPointer);
-	}
-	if(threadRunning == false){
-		startThread();
-	}
-}
-
-void WriteFile::log(float* array, int length){
-	for(int n = 0; n < length; n++){
-		log(array[n]);
-	}
-}
-
-WriteFile::~WriteFile() {
-	free(format);
-	free(buffer);
-	free(header);
-	free(footer);
-	free(stringBuffer);
-}
-
-void WriteFile::setFormat(const char* newFormat){
-	allocateAndCopyString(newFormat, &format);
-	for(unsigned int n = 0; n < formatTokens.size(); n++){
-		free(formatTokens[n]);
-	}
-	formatTokens.clear();
-	int tokenStart = 0;
-	bool firstToken = true;
-	for(unsigned int n = 0; n < strlen(format)+1; n++){
-		if(format[n] == '%' && format[n + 1] == '%'){
-			n++;
-		} else if (format[n] == '%' || format[n] == 0){
-			if(firstToken == true){
-				firstToken = false;
-				continue;
-			}
-			char* string;
-			unsigned int tokenLength = n - tokenStart;
-			if(tokenLength == 0)
-				continue;
-			string = (char*)malloc((1+tokenLength)*sizeof(char));
-			for(unsigned int i = 0; i < tokenLength; i++){
-				string[i] = format[tokenStart + i];
-			}
-			string[tokenLength] = 0;
-			formatTokens.push_back(string);
-			tokenStart = n;
-		}
-	}
-	setLineLength(formatTokens.size());
-}
-
-int WriteFile::getNumInstances(){
-	return objAddrs.size();
-}
-
-void WriteFile::startThread(){
-	BeagleRT_scheduleAuxiliaryTask(writeAllFilesTask);
-}
-
-void WriteFile::stopThread(){
-	threadIsExiting=true;
-}
-
-bool WriteFile::threadShouldExit(){
-	return(gShouldStop || threadIsExiting);
-}
-
-bool WriteFile::isThreadRunning(){
-	return threadRunning;
-}
-
-float WriteFile::getBufferStatus(){
-	return 1-getOffset()/(float)bufferLength;
-}
-
-int WriteFile::getOffsetFromPointer(int aReadPointer){
-	int offset = writePointer - aReadPointer;
-		if( offset < 0)
-			offset += bufferLength;
-		return offset;
-}
-int WriteFile::getOffset(){
-	if(fileType == kBinary){
-		return getOffsetFromPointer(binaryReadPointer);
-	}
-	else{
-		return getOffsetFromPointer(textReadPointer);
-	}
-}
-
-void WriteFile::writeOutput(bool flush){
-	while((echo == true || fileType == kText) && getOffsetFromPointer(textReadPointer) >= lineLength){ //if there is less than one line worth of data to write, skip over.
-							 	 // So we make sure we only write full lines
-		writeLine();
-	}
-	if(fileType == kBinary){
-		int numBinaryElementsToWriteAtOnce = 3*(int)1e5;
-		while(getOffsetFromPointer(binaryReadPointer) > numBinaryElementsToWriteAtOnce){
-			int elementsToEndOfBuffer = bufferLength - binaryReadPointer;
-			int numberElementsToWrite = numBinaryElementsToWriteAtOnce < elementsToEndOfBuffer ?
-					numBinaryElementsToWriteAtOnce : elementsToEndOfBuffer;
-			numberElementsToWrite = fwrite(&(buffer[binaryReadPointer]), sizeof(float), numberElementsToWrite, file);
-			binaryReadPointer += numberElementsToWrite;
-			if(binaryReadPointer >= bufferLength){
-				binaryReadPointer = 0;
-			}
-		}
-		if(flush == true){ // flush all the buffer to the file
-			while(getOffsetFromPointer(binaryReadPointer) != 0){
-				binaryReadPointer += fwrite(&(buffer[binaryReadPointer]), sizeof(float), 1, file);
-				if(binaryReadPointer >= bufferLength){
-					binaryReadPointer = 0;
-				}
-			}
-		}
-	}
-}
-
-void WriteFile::writeAllOutputs(bool flush){
-	for(unsigned int n = 0; n < objAddrs.size(); n++){
-		objAddrs[n] -> writeOutput(flush);
-	}
-}
-
-void WriteFile::writeAllHeaders(){
-	for(unsigned int n = 0; n < objAddrs.size(); n++){
-		objAddrs[n] -> writeHeader();
-	}
-}
-
-void WriteFile::writeAllFooters(){
-	for(unsigned int n = 0; n < objAddrs.size(); n++){
-		objAddrs[n] -> writeFooter();
-	}
-}
-
-void WriteFile::writeHeader(){
-	print(header);
-}
-
-void WriteFile::writeFooter(){
-	print(footer);
-	fflush(file);
-	fclose(file);
-}
-
-void WriteFile::setHeader(const char* newHeader){
-	allocateAndCopyString(newHeader, &header);
-	sanitizeString(header);
-}
-
-void WriteFile::setFooter(const char* newFooter){
-	allocateAndCopyString(newFooter, &footer);
-}
-
-void WriteFile::sanitizeString(char* string){
-	for(int unsigned n = 0; n < strlen(string); n++){ //purge %'s from the string
-		if(string[n] == '%'){
-			string[n] = ' ';
-		}
-	}
-}
-
-void WriteFile::run(){
-	threadRunning = true;
-	writeAllHeaders();
-	while(threadShouldExit()==false){
-		writeAllOutputs(false);
-		usleep(sleepTimeMs*1000);
-	}
-	writeAllOutputs(true);
-	writeAllFooters(); // when ctrl-c is pressed, the last line is closed and the file is closed
-	threadRunning = false;
-}
-
-void WriteFile::allocateAndCopyString(const char* source, char** destination){
-	free(*destination);
-	*destination = (char*)malloc(sizeof(char) * (strlen(source) + 1));
-	strcpy(*destination, source);
-}