public Replay(Queue <string> originalTrackData, Queue <string> originalInfoData, OriginalType originalType, int originalLength, int frameRate, int pxPERmm, string folder, string name, string fishID) :
base(folder, name, fishID, originalLength, frameRate, pxPERmm)
{
if (FileSaver != null)
{
_trackWriter = FileSaver.GetStreamWriter(".track");
_imageWriter = FileSaver.GetTiffWriter("_camImage.tif", true);
_backgroundWriter = FileSaver.GetTiffWriter("_bgImage.tif", true);
//Create 10x10 mm region image
_camRegion = new Image8(Properties.Settings.Default.PixelsPermm * 10, Properties.Settings.Default.PixelsPermm * 10);
}
_laser = new SDLPS500Controller(Properties.Settings.Default.DAQ, Properties.Settings.Default.LaserAO);
string xchannel = Properties.Settings.Default.DAQ + "/" + Properties.Settings.Default.ScannerX;
string ychannel = Properties.Settings.Default.DAQ + "/" + Properties.Settings.Default.ScannerY;
//Load scan lookup table from file
try
{
TextReader reader = File.OpenText("main.calib");
var scanTable = BLIScanLookupTable.LoadFromFile(reader);
_scanner = new RandomAccessScanner(scanTable, xchannel, ychannel, -10, 10);
reader.Dispose();
}
catch (IOException)
{
System.Diagnostics.Debug.WriteLine("Could not find calibration data. No targeting available");
}
//This is a closed-loop experiment - try to stay fully up-to-date
SuggestedBufferSeconds = 0;
_originalType = originalType;
_originalTrackData = originalTrackData;
_originalInfoData = originalInfoData;
_experimentPhase = ExperimentPhase.Replay;
}
// updates the state of the experiment. returns true until the experiment is finished (should at best not be overwritten)
public bool update()
{
if (pause)
{
pauseTime += Time.deltaTime;
}
else
{
pauseTime = 0;
}
ExperimentPhase phase = phaseIterator.Current;
if (phase == null || Time.time - pauseTime >= startTime + phase.duration)
{
if (phaseIterator.MoveNext())
{
phase = phaseIterator.Current;
phase.action.Invoke();
startTime = Time.time;
current++;
}
else
{
isFinished = true;
writer.writeFooter(name);
writer.close();
}
}
return(!isFinished);
}
/// <summary>
/// Processes one frame during the gradient
/// </summary>
private void RunGradient(BlobWithMoments fish)
{
//compute laser power based on distance from dish center
if (fish != null)
{
var radius = Math.Sqrt((fish.xc - DishCenter.x) * (fish.xc - DishCenter.x) + (fish.yc - DishCenter.y) * (fish.yc - DishCenter.y));
var radFraction = radius / Radius;
if (radFraction > 1)
{
radFraction = 1;
}
_laser.LaserPower = radFraction * (EdgeLaserPower - CenterLaserPower) + CenterLaserPower;
}
if (_currentPhaseFrame >= _gradFrames)
{
if (_currentTrial < _nTrials)
{
SwitchToPrePhase();
}
else
{
_laser.LaserPower = 0;
_experimentPhase = ExperimentPhase.Done;
}
}
else
{
_currentPhaseFrame++;
}
}
/// <summary>
/// Processes one frame during the replay experiment
/// </summary>
private void RunReplay(double originalPower)
{
_laser.LaserPower = originalPower;
//If queue is empty now, change phase to done
if (_originalTrackData.Count < 1)
{
_experimentPhase = ExperimentPhase.Done;
}
}
/// <summary>
/// Processes one frame during Pre-phase
/// </summary>
private void RunPrePhase()
{
//flat power corresponding to center power
_laser.LaserPower = CenterLaserPower;
if (_currentPhaseFrame >= _preFrames)
{
_currentPhaseFrame = 0;
_experimentPhase = ExperimentPhase.Gradient;
}
else
{
_currentPhaseFrame++;
}
}
/// <summary>
/// Processes one frame during RampDown
/// </summary>
private void RunRampDown()
{
//compute laser power as linear ramp over phase
_laser.LaserPower = (1 - (double)_currentPhaseFrame / (double)_rampFrames) * (PeakLaserPower - BaseLaserPower) + BaseLaserPower;
if (_currentPhaseFrame >= _rampFrames)
{
_currentPhaseFrame = 0;
_experimentPhase = ExperimentPhase.Rest;
}
else
{
_currentPhaseFrame++;
}
}
/// <summary>
/// Processes one frame during Rest
/// </summary>
private void RunRest()
{
_laser.LaserPower = BaseLaserPower;
if (_currentPhaseFrame >= _restFrames)
{
if (_currentTrial < _nTrials)
{
SwitchToRampUp();
}
else
{
_laser.LaserPower = 0;
_experimentPhase = ExperimentPhase.Done;
}
}
else
{
_currentPhaseFrame++;
}
}
public CircularGradient(int habitSeconds, int preSeconds, int gradientSeconds, int nTrials, int frameRate, int pxPERmm, string folder, string name, string fishID) :
base(folder, name, fishID, habitSeconds + (preSeconds + gradientSeconds) * nTrials, frameRate, pxPERmm)
{
if (FileSaver != null)
{
_trackWriter = FileSaver.GetStreamWriter(".track");
_imageWriter = FileSaver.GetTiffWriter("_camImage.tif", true);
_backgroundWriter = FileSaver.GetTiffWriter("_bgImage.tif", true);
//Create 10x10 mm region image
_camRegion = new Image8(Properties.Settings.Default.PixelsPermm * 10, Properties.Settings.Default.PixelsPermm * 10);
}
_laser = new SDLPS500Controller(Properties.Settings.Default.DAQ, Properties.Settings.Default.LaserAO);
string xchannel = Properties.Settings.Default.DAQ + "/" + Properties.Settings.Default.ScannerX;
string ychannel = Properties.Settings.Default.DAQ + "/" + Properties.Settings.Default.ScannerY;
//Load scan lookup table from file
try
{
TextReader reader = File.OpenText("main.calib");
var scanTable = BLIScanLookupTable.LoadFromFile(reader);
_scanner = new RandomAccessScanner(scanTable, xchannel, ychannel, -10, 10);
reader.Dispose();
}
catch (IOException)
{
System.Diagnostics.Debug.WriteLine("Could not find calibration data. No targeting available");
}
_preFrames = preSeconds * FrameRate;
_gradFrames = gradientSeconds * FrameRate;
_habitFrames = habitSeconds * FrameRate;
_nTrials = nTrials;
_currentPhaseFrame = 0;
_currentTrial = 0;//Start at 0 during habituation will be pre-incremented as we enter pre-phase and will be checked for completing at end of gradient phase
//This is a closed-loop experiment - try to stay fully up-to-date
SuggestedBufferSeconds = 0;
//Start in habituation phase
_experimentPhase = ExperimentPhase.Habituation;
}
/// <summary>
/// Switches phase to pre-gradient marking the begin of a new trial
/// </summary>
private void SwitchToPrePhase()
{
_experimentPhase = ExperimentPhase.Pre;
_currentPhaseFrame = 0;
_currentTrial++;
}
/// <summary>
/// Switches phase to ramp-up marking the begin of a new trial
/// </summary>
private void SwitchToRampUp()
{
_experimentPhase = ExperimentPhase.RampUp;
_currentPhaseFrame = 0;
_currentTrial++;
}
