def calibrateClick(appObj, testMode=False):
print("ABR.calibrateClick")
appObj.tabWidget.setCurrentIndex(3)
appObj.doneFlag = False
appObj.isCollecting = True
# trigRate = octfpga.GetTriggerRate()
audioHW = appObj.audioHW
outputRate = audioHW.DAQOutputRate
inputRate = audioHW.DAQInputRate
# freq_array2 = audioParams.freq[1, :]
freqArray = appObj.getFrequencyArray()
if testMode:
testDataDir = os.path.join(appObj.basePath, 'exampledata', 'Speaker Calibration')
# filePath = os.path.join(testDataDir, 'AudioParams.pickle')
# f = open(filePath, 'rb')
# audioParams = pickle.load(f)
# f.close()
else:
pass
# numSpk = audioParams.getNumSpeakers()
if not testMode:
from DAQHardware import DAQHardware
daq = DAQHardware()
chanNamesIn= [ audioHW.mic_daqChan]
micVoltsPerPascal = audioHW.micVoltsPerPascal
ABRparams = ABRParams(appObj)
ABRparams.click = True
ABRparams.nReps = 20
print("ABR.calibrateClick ABRparams=", ABRparams.__dict__)
# set input rate to three times the highest output frequency, to allow plus a
# inputRate = 3*freqArray[-1]
# print("runABR: outputRate= ", outputRate, " inputRate= ", inputRate)
# inputRate = np.max((inputRate, 6e3)) # inpute rate should be at least 6 kHz because ABR responses occur 0.3 - 3 kHz
# inputRate = outputRate / int(np.floor(outputRate / inputRate)) # pick closest input rate that evenly divides output rate
# print("runABR: inputRate(final)= ", inputRate)
try:
chanNameOut = audioHW.speakerL_daqChan
attenLines = audioHW.attenL_daqChan
spkOut_trial = makeABROutput(4e3, ABRparams, audioHW)
spkOut = np.tile(spkOut_trial, ABRparams.nReps)
npts = len(spkOut_trial)
tOut = np.linspace(0, npts/outputRate, npts)
# attenSig = AudioHardware.makeLM1972AttenSig(0)
if not testMode:
AudioHardware.Attenuator.setLevel(0, attenLines)
pl = appObj.ABR_output
pl.clear()
endIdx = int(5e-3 * outputRate) # only plot first 5 ms
#pl.plot(t[0:endIdx], spkOut[0:endIdx], pen='b')
pl.plot(tOut, spkOut_trial, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Output', 'V', **labelStyle)
numInputSamples = int(inputRate*len(spkOut)/outputRate)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
# setup the output task
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn, int(outputRate), spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn, int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
timeout = numInputSamples/inputRate + 2
dataIn = daq.readAnalogInput(timeout)
mic_data = dataIn[0, :]
mic_data = mic_data/micVoltsPerPascal
daq.waitDoneInput()
daq.stopAnalogInput()
daq.clearAnalogInput()
daq.waitDoneOutput(stopAndClear=True)
print("ABR.calibrateClick: plotting data")
npts = len(mic_data)
# reshape and average the mic data
ptsPerRep = npts // ABRparams.nReps
mic_data = np.reshape(mic_data, (ABRparams.nReps, ptsPerRep))
mic_data = np.mean(mic_data, 0)
# plot mic data
npts = len(mic_data)
t = np.linspace(0, npts/inputRate, npts)
pl = appObj.ABR_micInput
pl.clear()
pl.plot(t, mic_data, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Response', 'Pa', **labelStyle)
idx1 = round(inputRate*ABRparams.stimOffset)
idx2 = idx1 + round(inputRate*ABRparams.stimDur)
mic_data = mic_data[idx1:idx2]
# apply high pass filter to get rid of LF components
# (b, a) = scipy.signal.butter(5, 100/inputRate, 'high')
# mic_data = scipy.signal.lfilter(b, a, mic_data)
rms = np.mean(mic_data ** 2) ** 0.5
rms = 20*np.log10(rms/2e-5)
appObj.ABRclick_RMS = rms
appObj.ABR_rms_label.setText("%0.1f dB" % rms)
print("ABR.calibrateClick: RMS= ", rms)
except Exception as ex:
traceback.print_exc(file=sys.stdout)
QtGui.QMessageBox.critical (appObj, "Error", "Error during collection. Check command line output for details")
appObj.isCollecting = False
QtGui.QApplication.processEvents() # check for GUI events, such as button presses
appObj.finishCollection()
def runSpeakerCal(appObj, testMode=False):
print("runSpeakerCal")
appObj.tabWidget.setCurrentIndex(0)
appObj.doneFlag = False
appObj.isCollecting = True
# trigRate = octfpga.GetTriggerRate()
audioHW = appObj.audioHW
outputRate = audioHW.DAQOutputRate
inputRate = audioHW.DAQInputRate
if testMode:
testDataDir = os.path.join(appObj.basePath, 'exampledata', 'Speaker Calibration')
# filePath = os.path.join(testDataDir, 'AudioParams.pickle')
# f = open(filePath, 'rb')
# audioParams = pickle.load(f)
# f.close()
else:
freqArray = appObj.getFrequencyArray()
# numSpk = audioParams.getNumSpeakers()
numSpk = 1
cIdx = appObj.speaker_comboBox.currentIndex()
if cIdx > 0:
numSpk = 2
if not testMode:
from DAQHardware import DAQHardware
daq = DAQHardware()
chanNamesIn= [ audioHW.mic_daqChan]
micVoltsPerPascal = audioHW.micVoltsPerPascal
# mode = 'chirp'
mode = ''
spCal = None
# freq_array2 = audioParams.freq[1, :]
try:
frameNum = 0
isSaveDirInit = False
trialDur = appObj.spCal_stimDuration_dblSpinBox.value()*1e-3
freq_array = freqArray
freq_array2 = freqArray/1.22
if numSpk == 1:
freq_array = np.concatenate((freq_array, freq_array2))
freq_array = np.sort(freq_array)
freq_array2 = freq_array
spCal = SpeakerCalData(np.vstack((freq_array, freq_array2)))
for spkNum in range(0, numSpk):
chanNameOut = audioHW.speakerL_daqChan
#attenLines = audioHW.attenL_daqChan
#attenLinesOther = audioHW.attenR_daqChan
spkIdx = 0
attenLvl1 = 0
attenLvl2 = audioHW.maxAtten
if spkNum == 2:
#chanNameOut = audioHW.speakerR_daqChan
#attenLines = audioHW.attenR_daqChan
#attenLinesOther = audioHW.attenL_daqChan
spkIdx = 1
attenLvl1 = audioHW.maxAtten
attenLvl2 = 0
freq_idx = 0
if not testMode:
audioHW.setAttenuatorLevel(attenLvl1, attenLvl2, daq)
# daq.sendDigOutCmd(attenLines, attenSig)
# appObj.oct_hw.SetAttenLevel(0, attenLines)
if mode == 'chirp':
tChirp = 1
f0 = 100
f1 = 100e3
k = (f1- f0)/tChirp
nChirpPts = round(outputRate*tChirp)
t = np.linspace(0, tChirp, nChirpPts)
spkOut = np.cos(2*np.pi*(f1*t + (k/2)*t**2))
pl = appObj.spCal_output
pl.clear()
endIdx = int(5e-3 * outputRate) # only plot first 5 ms
pl.plot(t[0:endIdx], spkOut[0:endIdx], pen='b')
numInputSamples = int(inputRate*len(spkOut)/outputRate)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn, int(outputRate), spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn, int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
mic_data = daq.readAnalogInput()
mic_data = mic_data[0, :]
mic_data_chirp = mic_data/micVoltsPerPascal
if not testMode:
daq.waitDoneOutput(stopAndClear=True)
daq.stopAnalogInput()
daq.clearAnalogInput()
npts = len(mic_data)
t = np.linspace(0, npts/inputRate, npts)
pl = appObj.spCal_micInput
pl.clear()
pl.plot(t, mic_data, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Response', 'Pa', **labelStyle)
# play refernce tone
refFreq = 4e3
tRef = 50e-3
nRefPts = round(outputRate*tRef)
t = np.linspace(0, tRef, nRefPts)
spkOut = np.cos(2*np.pi*refFreq*t)
# apply envelope
i1 = round(outputRate*1e-3)
i2 = nRefPts- i1
env = np.linspace(0, 1, i1)
spkOut[0:i1] = spkOut[0:i1]*env
spkOut[i2:] = spkOut[i2:]*(1-env)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn, int(outputRate), spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn, int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
mic_data = daq.readAnalogInput()
mic_data_ref = mic_data/micVoltsPerPascal
if not testMode:
daq.waitDoneOutput(stopAndClear=True)
daq.stopAnalogInput()
daq.clearAnalogInput()
micData, spCal = processSpkCalDataChirp(mic_data_chirp, mic_data_ref, inputRate, spCal, spkIdx, f0, f1, refFreq)
pl = appObj.spCal_micFFT
pl.clear()
df = micData.fft_freq[1] - micData.fft_freq[0]
nf = len(micData.fft_freq)
i1 = int(freq_array[0]*0.9/df)
i2 = int(freq_array[-1]*1.1/df)
print("SpeakerCalibration: df= %0.3f i1= %d i2= %d nf= %d" % (df, i1, i2, nf))
pl.plot(micData.fft_freq[i1:i2], micData.fft_mag[i1:i2], pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Frequency', 'Hz', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Magnitude', 'db SPL', **labelStyle)
pl = appObj.spCal_spkResp
pl.clear()
# pl.plot(1000*spCal.freq[spkIdx, :], spCal.magResp[spkIdx, :], pen="b", symbol='o')
pl.plot(freq_array, spCal.magResp[spkIdx, :], pen="b", symbol='o')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Frequency', 'Hz', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Magnitude', 'db SPL', **labelStyle)
else:
for freq in freq_array:
print("runSpeakerCal freq=" + repr(freq))
spkOut = makeSpeakerCalibrationOutput(freq, audioHW, trialDur)
npts = len(spkOut)
t = np.linspace(0, npts/outputRate, npts)
pl = appObj.spCal_output
pl.clear()
endIdx = int(5e-3 * outputRate) # only plot first 5 ms
pl.plot(t[0:endIdx], spkOut[0:endIdx], pen='b')
numInputSamples = int(inputRate*len(spkOut)/outputRate)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
# setup the output task
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn, int(outputRate), spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn, int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
mic_data = daq.readAnalogInput()
mic_data = mic_data[0, :]
mic_data = mic_data/micVoltsPerPascal
if not testMode:
daq.stopAnalogInput()
daq.stopAnalogOutput()
daq.clearAnalogInput()
daq.clearAnalogOutput()
npts = len(mic_data)
t = np.linspace(0, npts/inputRate, npts)
pl = appObj.spCal_micInput
pl.clear()
pl.plot(t, mic_data, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Response', 'Pa', **labelStyle)
micData, spCal = processSpkCalData(mic_data, freq, freq_idx, inputRate, spCal, spkIdx, audioHW)
pl = appObj.spCal_micFFT
pl.clear()
df = micData.fft_freq[1] - micData.fft_freq[0]
nf = len(micData.fft_freq)
i1 = int(freq_array[0]*0.9/df)
i2 = int(freq_array[-1]*1.1/df)
print("SpeakerCalibration: df= %0.3f i1= %d i2= %d nf= %d" % (df, i1, i2, nf))
pl.plot(micData.fft_freq[i1:i2], micData.fft_mag[i1:i2], pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Frequency', 'Hz', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Magnitude', 'db SPL', **labelStyle)
pl = appObj.spCal_spkResp
pl.clear()
# pl.plot(1000*spCal.freq[spkIdx, :], spCal.magResp[spkIdx, :], pen="b", symbol='o')
pl.plot(freq_array, spCal.magResp[spkIdx, :], pen="b", symbol='o')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Frequency', 'Hz', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Magnitude', 'db SPL', **labelStyle)
freq_idx += 1
# if appObj.getSaveState():
# if not isSaveDirInit:
# saveDir = OCTCommon.initSaveDir(saveOpts, 'Speaker Calibration', audioParams=audioParams)
# isSaveDirInit = True
#
# if saveOpts.saveRaw:
# OCTCommon.saveRawData(mic_data, saveDir, frameNum, dataType=3)
QtGui.QApplication.processEvents() # check for GUI events, such as button presses
# if done flag, break out of loop
if appObj.doneFlag:
break
frameNum += 1
# if done flag, break out of loop
if appObj.doneFlag:
break
if not appObj.doneFlag:
saveDir = appObj.configPath
saveSpeakerCal(spCal, saveDir)
appObj.audioHW.loadSpeakerCalFromProcData(spCal)
appObj.spCal = spCal
except Exception as ex:
traceback.print_exc(file=sys.stdout)
QtGui.QMessageBox.critical (appObj, "Error", "Error during calibration. Check command line output for details")
8# update the audio hardware speaker calibration
appObj.isCollecting = False
QtGui.QApplication.processEvents() # check for GUI events, such as button presses
appObj.finishCollection()
def runCM(appObj, testMode=False):
print("runCM")
appObj.tabWidget.setCurrentIndex(4)
appObj.doneFlag = False
appObj.isCollecting = True
# trigRate = octfpga.GetTriggerRate()
audioHW = appObj.audioHW
bioamp = appObj.bioamp
outputRate = audioHW.DAQOutputRate
inputRate = audioHW.DAQInputRate
# freq_array2 = audioParams.freq[1, :]
freqArray = appObj.getFrequencyArray()
if testMode:
testDataDir = os.path.join(appObj.basePath, 'exampledata',
'Speaker Calibration')
# filePath = os.path.join(testDataDir, 'AudioParams.pickle')
# f = open(filePath, 'rb')
# audioParams = pickle.load(f)
# f.close()
else:
# freqArray = appObj.getFrequencyArray()
i1 = appObj.CM_freqLow_comboBox.currentIndex()
i2 = appObj.CM_freqHigh_comboBox.currentIndex()
print("runCM: i1= ", i1, "i2= ", i2)
ampLow = appObj.CMampLow_spinBox.value()
ampHigh = appObj.CMampHigh_spinBox.value()
ampDelta = appObj.CMampDelta_spinBox.value()
# ampArray = np.arange(ampLow, ampHigh, ampDelta)
#numSteps = np.floor((ampHigh - ampLow)/ampDelta) + 1
#ampArray = np.linspace(ampLow, ampHigh, numSteps)
ampArray = np.arange(ampLow, ampHigh, ampDelta)
if ampArray[-1] != ampHigh:
ampArray = np.hstack((ampArray, ampHigh))
freqArray = freqArray[i1:i2 + 1]
# numSpk = audioParams.getNumSpeakers()
if not testMode:
from DAQHardware import DAQHardware
daq = DAQHardware()
chanNamesIn = [audioHW.mic_daqChan, bioamp.daqChan]
micVoltsPerPascal = audioHW.micVoltsPerPascal
trialDur = appObj.CMstimDuration_dblSpinBox.value() * 1e-3
stimOffset = appObj.CMstimOffset_dblSpinBox.value() * 1e-3
nReps = appObj.CMtrialReps_spinBox.value()
# set input rate to three times the highest output frequency, to allow plus a
#inputRate = 3*freqArray[-1]
# inputRate = outputRate / int(np.floor(outputRate / inputRate)) # pick closest input rate that evenly divides output rate
try:
frameNum = 0
isSaveDirInit = False
chanNameOut = audioHW.speakerL_daqChan
attenLines = audioHW.attenL_daqChan
freq_idx = 0
CMdata = None
for freq in freqArray:
spkOut_trial = makeCMOutput(freq, trialDur, stimOffset, audioHW)
spkOut = np.tile(spkOut_trial, nReps)
npts = len(spkOut_trial)
tOut = np.linspace(0, npts / outputRate, npts)
print("runCM npts=%d len(spkOut_trial)= %d len(tOut)= %d" %
(npts, len(spkOut_trial), len(tOut)))
amp_idx = 0
ptsPerRep = inputRate
for amp in ampArray:
print("runCM freq=" + repr(freq), " amp= ", +amp,
" freq_idx= ", freq_idx, " amp_idx= ", amp_idx)
vOut, attenLvl = audioHW.getCalibratedOutputVoltageAndAttenLevel(
freq, amp, 0)
# attenSig = AudioHardware.makeLM1972AttenSig(0)
if not testMode:
# AudioHardware.Attenuator.setLevel(attenLvl, attenLines)
audioHW.setAttenuatorLevel(attenLvl, audioHW.maxAtten, daq)
# daq.sendDigOutCmd(attenLines, attenSig)
# appObj.oct_hw.SetAttenLevel(0, attenLines)
pl = appObj.spCal_output
pl.clear()
endIdx = int(5e-3 * outputRate) # only plot first 5 ms
#pl.plot(t[0:endIdx], spkOut[0:endIdx], pen='b')
pl.plot(tOut, spkOut_trial, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Output', 'V', **labelStyle)
numInputSamples = nReps * int(
inputRate * len(spkOut_trial) / outputRate)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
# setup the output task
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn,
int(outputRate), vOut * spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn,
int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
timeout = numInputSamples / inputRate + 2
dataIn = daq.readAnalogInput(timeout)
mic_data = dataIn[0, :]
bioamp_data = dataIn[1, :]
mic_data = mic_data / micVoltsPerPascal
bioamp_data = bioamp_data / bioamp.gain
daq.waitDoneOutput(stopAndClear=True)
daq.stopAnalogInput()
daq.clearAnalogInput()
npts = len(mic_data)
t = np.linspace(0, npts / inputRate, npts)
pl = appObj.spCal_micInput
pl.clear()
pl.plot(t, mic_data, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Response', 'Pa', **labelStyle)
# def processCMData(mic_data, bioamp_data, nReps, freq, amp_idx, inputRate, CMdataIn):
CMptData, CMdata = processCMData(mic_data, bioamp_data, nReps,
freq, freq_idx, amp_idx,
freqArray, ampArray,
inputRate, CMdata)
print("runCM: plotting data")
plotCMdata(appObj, CMptData, CMdata)
# if appObj.getSaveState():
# if not isSaveDirInit:
# saveDir = OCTCommon.initSaveDir(saveOpts, 'Speaker Calibration', audioParams=audioParams)
# isSaveDirInit = True
#
# if saveOpts.saveRaw:
# OCTCommon.saveRawData(mic_data, saveDir, frameNum, dataType=3)
QtGui.QApplication.processEvents(
) # check for GUI events, such as button presses
# if done flag, break out of loop
if appObj.doneFlag:
break
frameNum += 1
amp_idx += 1
# if done flag, break out of loop
if appObj.doneFlag:
break
freq_idx += 1
saveOpts = appObj.getSaveOpts()
workbook = appObj.excelWB
note = saveOpts.note
number = appObj.CMnumber
name = 'CM'
d = datetime.datetime.now()
timeStr = d.strftime('%H_%M_%S')
excelWS = CMPCommon.initExcelSpreadsheet(workbook, name, number,
timeStr, note)
appObj.CMnumber += 1
saveOpts.saveTracings = appObj.CM_saveTracings_checkBox.isChecked()
saveDir = appObj.saveDir_lineEdit.text()
saveCMDataXLS(CMdata, trialDur, nReps, excelWS, saveOpts)
#saveCMData(CMdata, trialDur, nReps, appObj.saveFileTxt_filepath, saveOpts, timeStr)
plotName = 'CM %d %s %s' % (number, timeStr, saveOpts.note)
saveCMDataFig(CMdata, trialDur, nReps, saveDir, plotName, timeStr)
saveCMDataPickle(CMdata, trialDur, nReps, plotName, saveOpts, timeStr)
except Exception as ex:
traceback.print_exc(file=sys.stdout)
QtGui.QMessageBox.critical(
appObj, "Error",
"Error during collection. Check command line output for details")
8 # update the audio hardware speaker calibration
appObj.isCollecting = False
QtGui.QApplication.processEvents(
) # check for GUI events, such as button presses
appObj.finishCollection()
def runABR(appObj, testMode=False):
print("runABR")
appObj.tabWidget.setCurrentIndex(3)
appObj.doneFlag = False
appObj.isCollecting = True
# trigRate = octfpga.GetTriggerRate()
audioHW = appObj.audioHW
bioamp = appObj.bioamp
outputRate = audioHW.DAQOutputRate
inputRate = audioHW.DAQInputRate
# freq_array2 = audioParams.freq[1, :]
freqArray = appObj.getFrequencyArray()
ABRparams = ABRParams(appObj)
if testMode:
testDataDir = os.path.join(appObj.basePath, 'exampledata', 'Speaker Calibration')
# filePath = os.path.join(testDataDir, 'AudioParams.pickle')
# f = open(filePath, 'rb')
# audioParams = pickle.load(f)
# f.close()
else:
# freqArray = appObj.getFrequencyArray()
i1 = appObj.ABR_freqLow_comboBox.currentIndex()
i2 = appObj.ABR_freqHigh_comboBox.currentIndex()
print("runABR: i1= ", i1, "i2= ", i2)
ampLow = appObj.ABRampLow_spinBox.value()
ampHigh = appObj.ABRampHigh_spinBox.value()
ampDelta = appObj.ABRampDelta_spinBox.value()
# ampArray = np.arange(ampLow, ampHigh, ampDelta)
#numSteps = np.floor((ampHigh - ampLow)/ampDelta) + 1
#ampArray = np.linspace(ampLow, ampHigh, numSteps)
if ampLow == ampHigh:
ampArray = np.array([ampLow])
else:
ampArray = np.arange(ampLow, ampHigh, ampDelta)
if ampArray[-1] != ampHigh:
ampArray = np.hstack((ampArray, ampHigh))
freqArray = freqArray[i1:i2+1]
if ABRparams.click:
freqArray = freqArray[0:1] # only use single freqeucny
clickRMS = appObj.ABRclick_RMS
# numSpk = audioParams.getNumSpeakers()
if not testMode:
from DAQHardware import DAQHardware
daq = DAQHardware()
chanNamesIn= [ audioHW.mic_daqChan, bioamp.daqChan]
micVoltsPerPascal = audioHW.micVoltsPerPascal
# set input rate to three times the highest output frequency, to allow plus a
# inputRate = 3*freqArray[-1]
# print("runABR: outputRate= ", outputRate, " inputRate= ", inputRate)
# inputRate = np.max((inputRate, 6e3)) # inpute rate should be at least 6 kHz because ABR responses occur 0.3 - 3 kHz
# inputRate = outputRate / int(np.floor(outputRate / inputRate)) # pick closest input rate that evenly divides output rate
# print("runABR: inputRate(final)= ", inputRate)
try:
frameNum = 0
numFrames = len(freqArray)*len(ampArray)
isSaveDirInit = False
chanNameOut = audioHW.speakerL_daqChan
attenLines = audioHW.attenL_daqChan
freq_idx = 0
ABRdata = None
appObj.status_label.setText("Running")
appObj.progressBar.setValue(0)
for freq in freqArray:
spkOut_trial = makeABROutput(freq, ABRparams, audioHW)
npts = len(spkOut_trial)
spkOut = np.tile(spkOut_trial, ABRparams.nReps)
# invert every other trial, necessary for ABR/CAP output
for n in range(1, ABRparams.nReps, 2):
idx1 = n*npts
idx2 = (n+1)*npts
spkOut[idx1:idx2] = -spkOut[idx1:idx2]
# plt.figure(5)
# plt.clf()
# plt.plot(spkOut)
tOut = np.linspace(0, npts/outputRate, npts)
print("runABR npts=%d len(spkOut_trial)= %d len(tOut)= %d" % (npts, len(spkOut_trial), len(tOut)))
amp_idx = 0
ptsPerRep = int(inputRate*ABRparams.trialDur)
for amp in ampArray:
print("runABR freq=" + repr(freq), " amp= ", + amp, " freq_idx= ", freq_idx, " amp_idx= ", amp_idx)
if ABRparams.click:
clickRMS = appObj.ABRclick_RMS
attenLvl = 0
vOut = 10**((amp - clickRMS)/20)
minV = audioHW.speakerOutputRng[0]
if vOut < minV:
attenLvl = int(round(20*np.log10(minV/vOut)))
vOut = minV
else:
vOut, attenLvl = audioHW.getCalibratedOutputVoltageAndAttenLevel(freq, amp, 0)
print("runABR vOut= ", vOut, " atenLvl=", attenLvl)
if vOut > audioHW.speakerOutputRng[1]:
print("runABR vOut= ", vOut, " out of range")
continue
elif attenLvl > audioHW.maxAtten:
print("runABR attenLvl= ", attenLvl, " gerater than maximum attenuation")
continue
# attenSig = AudioHardware.makeLM1972AttenSig(0)
if not testMode:
AudioHardware.Attenuator.setLevel(attenLvl, attenLines)
# daq.sendDigOutABRd(attenLines, attenSig)
# appObj.oct_hw.SetAttenLevel(0, attenLines)
pl = appObj.ABR_output
pl.clear()
endIdx = int(5e-3 * outputRate) # only plot first 5 ms
#pl.plot(t[0:endIdx], spkOut[0:endIdx], pen='b')
pl.plot(tOut, spkOut_trial, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Output', 'V', **labelStyle)
numInputSamples = ABRparams.nReps*int(inputRate*len(spkOut_trial)/outputRate)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
# setup the output task
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn, int(outputRate), vOut*spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn, int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
timeout = numInputSamples/inputRate + 2
dataIn = daq.readAnalogInput(timeout)
mic_data = dataIn[0, :]
bioamp_data = dataIn[1, :]
mic_data = mic_data/micVoltsPerPascal
bioamp_data = bioamp_data/bioamp.gain
daq.waitDoneInput()
daq.stopAnalogInput()
daq.clearAnalogInput()
daq.waitDoneOutput(stopAndClear=True)
# npts = len(mic_data)
# t = np.linspace(0, npts/inputRate, npts)
# pl = appObj.ABR_micInput
# pl.clear()
# pl.plot(t, mic_data, pen='b')
#
# labelStyle = appObj.xLblStyle
# pl.setLabel('bottom', 'Time', 's', **labelStyle)
# labelStyle = appObj.yLblStyle
# pl.setLabel('left', 'Response', 'Pa', **labelStyle)
# def processABRData(mic_data, bioamp_data, nReps, freq, amp_idx, inputRate, ABRdataIn):
ABRptData, ABRdata = processABRData(mic_data, bioamp_data, freq, freq_idx, amp_idx, freqArray, ampArray, inputRate, ABRdata, ABRparams)
print("runABR: plotting data")
plotABRdata(appObj, ABRptData, ABRdata)
# if appObj.getSaveState():
# if not isSaveDirInit:
# saveDir = OCTCommon.initSaveDir(saveOpts, 'Speaker Calibration', audioParams=audioParams)
# isSaveDirInit = True
#
# if saveOpts.saveRaw:
# OCTCommon.saveRawData(mic_data, saveDir, frameNum, dataType=3)
idx1 = round(inputRate*ABRparams.stimOffset)
idx2 = idx1 + round(inputRate*ABRparams.stimDur)
mic_data = mic_data[idx1:idx2]
rms = np.mean(mic_data ** 2) ** 0.5
rms = 20*np.log10(rms/2e-5)
appObj.ABR_rms_label.setText("%0.1f dB" % rms)
QtGui.QApplication.processEvents() # check for GUI events, such as button presses
# if done flag, break out of loop
if appObj.doneFlag:
break
frameNum += 1
amp_idx += 1
appObj.progressBar.setValue(frameNum/numFrames)
# if done flag, break out of loop
if appObj.doneFlag:
break
freq_idx += 1
saveOpts = appObj.getSaveOpts()
workbook = appObj.excelWB
note = saveOpts.note
number = appObj.ABRnumber
name = 'ABR'
d = datetime.datetime.now()
timeStr = d.strftime('%H_%M_%S')
excelWS = CMPCommon.initExcelSpreadsheet(workbook, name, number, timeStr, note)
appObj.ABRnumber += 1
#saveOpts.saveTracings = appObj.ABR_saveTracings_checkBox.isChecked()
saveOpts.saveTracings = True
saveDir = appObj.saveDir_lineEdit.text()
saveABRDataXLS(ABRdata, ABRparams, excelWS, saveOpts)
#saveABRData(ABRdata, trialDur, nReps, appObj.saveFileTxt_filepath, saveOpts, timeStr)
plotName = 'ABR %d %s %s' % (number, timeStr, saveOpts.note)
saveABRDataFig(ABRdata, ABRparams, saveDir, plotName, timeStr)
saveABRDataPickle(ABRdata, ABRparams, plotName, saveOpts, timeStr)
except Exception as ex:
traceback.print_exc(file=sys.stdout)
QtGui.QMessageBox.critical (appObj, "Error", "Error during collection. Check command line output for details")
# update the audio hardware speaker calibration
appObj.isCollecting = False
QtGui.QApplication.processEvents() # check for GUI events, such as button presses
appObj.finishCollection()
def calibrateScanMirror(appObj):
DebugLog.log("calibrateScanMirror")
appObj.tabWidget.setCurrentIndex(7)
appObj.doneFlag = False
appObj.isCollecting = True
appObj.JSOsaveDispersion_pushButton.setEnabled(True)
appObj.JSOloadDispersion_pushButton.setEnabled(False)
if not appObj.oct_hw.IsOCTTestingMode(): # prepare to get new data
from DAQHardware import DAQHardware
daq = DAQHardware()
audioHW=appObj.audioHW
mirrorDriver = appObj.mirrorDriver
chanNames = [mirrorDriver.X_daqChan, mirrorDriver.Y_daqChan]
trigChan = audioHW.daqTrigChanIn #use the audio trigger to start the scan
outputRate = mirrorDriver.DAQoutputRate
while appObj.doneFlag == False: # keep running until the button is turned off
scanParams = appObj.getScanParams()
# create scan pattern to drive the mirrors
mode=appObj.scanShape_comboBox.currentIndex()
print('mode',mode)
if mode==0: # create a spiral scan using fast (resonant) scanning
Vmaxx=mirrorDriver.voltRange[1] # maximum voltage for MEMS mirror for x-axis
Vmaxy=mirrorDriver.voltRange[1] # maximum voltage for MEMS mirror for y-axis
xAdjust = 1
yAdjust = scanParams.skewResonant
phaseShift = scanParams.phaseAdjust
fr = mirrorDriver.resonantFreq # angular scan rate (frequency of one rotation - resonant frequency)
fv = scanParams.volScanFreq # plotParam scan frequency, which scans in and then out, which is actually two volumes
DebugLog.log("freq of one rotation (fr)= %d; scan frequency (fv)= %d" % (fr, fv))
diameter = scanParams.length
voltsPerMM = mirrorDriver.voltsPerMillimeterResonant
A1=(Vmaxx/2)/xAdjust
A2=(Vmaxy/2)/yAdjust
A3=voltsPerMM*diameter/2
A=np.min([A1,A2,A3])
fs=mirrorDriver.DAQoutputRate # galvo output sampling rate
t=np.arange(0,np.around(fs/fv))*1/fs # t is the array of times for the DAQ output to the mirrors
r=1/2*(1-np.cos(2*np.pi*fv*t))
x=xAdjust*A*r*np.cos(2*np.pi*fr*t) # x and y are the coordinates of the laser at each point in time
y=yAdjust*A*r*np.sin(2*np.pi*fr*t+phaseShift*np.pi/180)
mirrorOut= np.vstack((x,y))
elif mode==1: # create a square scan using slow parameters
Vmaxx=mirrorDriver.voltRange[1] # maximum voltage for MEMS mirror for x-axis
Vmaxy=mirrorDriver.voltRange[1] # maximum voltage for MEMS mirror for y-axis
xAdjust = 1
yAdjust = scanParams.skewNonResonant
diameter = scanParams.length
voltsPerMMX = mirrorDriver.voltsPerMillimeter*xAdjust
voltsPerMMY = mirrorDriver.voltsPerMillimeter*yAdjust
if ((diameter/2)*voltsPerMMX)>Vmaxx:
diameter=2*Vmaxx/voltsPerMMX
if ((diameter/2)*voltsPerMMY)>Vmaxy:
diameter=2*Vmaxy/voltsPerMMY
freq = appObj.cal_freq_dblSpinBox.value()
if freq>mirrorDriver.LPFcutoff: # can't go faster than the maximum scan rate
appObj.cal_freq_dblSpinBox.setValue(mirrorDriver.LPFcutoff)
fs=mirrorDriver.DAQoutputRate # galvo output sampling rate
t1=np.arange(0,np.around(fs/freq))*1/fs
n=np.around(t1.shape[0]/4)-1 # number of points in each 4th of the cycle (reduce by 1 to make it easy to shorten t1)
t=t1[0:4*n] # t is the array of times for the DAQ output to the mirrors
cornerX=(diameter/2)*voltsPerMMX # voltage at each corner of the square
cornerY=(diameter/2)*voltsPerMMY # voltage at each corner of the square
# x and y are the coordinates of the laser at each point in time
x=np.zeros(t.shape)
y=np.zeros(t.shape)
x[0:n]=np.linspace(-cornerX,cornerX,n)
y[0:n]=-cornerY
x[n:2*n]=cornerX
y[n:2*n]=np.linspace(-cornerY,cornerY,n)
x[2*n:3*n]=np.linspace(cornerX,-cornerX,n)
y[2*n:3*n]=cornerY
x[3*n:4*n]=-cornerX
y[3*n:4*n]=np.linspace(cornerY,-cornerY,n)
mirrorOut1= np.vstack((x,y))
if mirrorDriver.MEMS==True:
mirrorOut=scipy.signal.filtfilt(mirrorDriver.b_filt,mirrorDriver.a_filt,mirrorOut1)
else:
mirrorOut=mirrorOut1
# plot mirror commands to GUI
pl = appObj.JSOmisc_plot1
npts = mirrorOut.shape[1]
t = np.linspace(0, npts/outputRate, npts)
pl.clear()
pl.plot(t, mirrorOut[0, :], pen='b')
pl.plot(t, mirrorOut[1, :], pen='r')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Output', 'V', **labelStyle)
pl2=appObj.JSOmisc_plot2
pl2.clear()
pl2.plot(mirrorOut[0, :],mirrorOut[1, :], pen='b')
labelStyle = appObj.xLblStyle
pl2.setLabel('bottom', 'X galvo', 'V', **labelStyle)
labelStyle = appObj.yLblStyle
pl2.setLabel('left', 'Y galvo', 'V', **labelStyle)
if not appObj.oct_hw.IsDAQTestingMode():
# setup the analog output DAQ device
daq.setupAnalogOutput(chanNames, trigChan, outputRate, mirrorOut.transpose())
daq.startAnalogOutput()
#start trigger and wait for output to finish
daq.sendDigTrig(audioHW.daqTrigChanOut)
daq.waitDoneOutput(timeout=3, stopAndClear=True)
QtGui.QApplication.processEvents() # check for GUI events
else:
appObj.doneFlag = True # just run one time through if in test mode
appObj.CalibrateScanMirror_pushButton.setChecked(False)
# when testing is over, set the mirror position to (0,0)
if not appObj.oct_hw.IsDAQTestingMode():
chanNames = [mirrorDriver.X_daqChan, mirrorDriver.Y_daqChan]
data = np.zeros(2)
daq.writeValues(chanNames, data)
appObj.JSOsaveDispersion_pushButton.setEnabled(False)
appObj.JSOloadDispersion_pushButton.setEnabled(True)
appObj.isCollecting = False
appObj.finishCollection()
def calibrateClick(appObj, testMode=False):
print("ABR.calibrateClick")
appObj.tabWidget.setCurrentIndex(3)
appObj.doneFlag = False
appObj.isCollecting = True
# trigRate = octfpga.GetTriggerRate()
audioHW = appObj.audioHW
outputRate = audioHW.DAQOutputRate
inputRate = audioHW.DAQInputRate
# freq_array2 = audioParams.freq[1, :]
freqArray = appObj.getFrequencyArray()
if testMode:
testDataDir = os.path.join(appObj.basePath, 'exampledata',
'Speaker Calibration')
# filePath = os.path.join(testDataDir, 'AudioParams.pickle')
# f = open(filePath, 'rb')
# audioParams = pickle.load(f)
# f.close()
else:
pass
# numSpk = audioParams.getNumSpeakers()
if not testMode:
from DAQHardware import DAQHardware
daq = DAQHardware()
chanNamesIn = [audioHW.mic_daqChan]
micVoltsPerPascal = audioHW.micVoltsPerPascal
ABRparams = ABRParams(appObj)
ABRparams.click = True
ABRparams.nReps = 20
print("ABR.calibrateClick ABRparams=", ABRparams.__dict__)
# set input rate to three times the highest output frequency, to allow plus a
# inputRate = 3*freqArray[-1]
# print("runABR: outputRate= ", outputRate, " inputRate= ", inputRate)
# inputRate = np.max((inputRate, 6e3)) # inpute rate should be at least 6 kHz because ABR responses occur 0.3 - 3 kHz
# inputRate = outputRate / int(np.floor(outputRate / inputRate)) # pick closest input rate that evenly divides output rate
# print("runABR: inputRate(final)= ", inputRate)
try:
chanNameOut = audioHW.speakerL_daqChan
attenLines = audioHW.attenL_daqChan
spkOut_trial = makeABROutput(4e3, ABRparams, audioHW)
spkOut = np.tile(spkOut_trial, ABRparams.nReps)
npts = len(spkOut_trial)
tOut = np.linspace(0, npts / outputRate, npts)
# attenSig = AudioHardware.makeLM1972AttenSig(0)
if not testMode:
AudioHardware.Attenuator.setLevel(0, attenLines)
pl = appObj.ABR_output
pl.clear()
endIdx = int(5e-3 * outputRate) # only plot first 5 ms
#pl.plot(t[0:endIdx], spkOut[0:endIdx], pen='b')
pl.plot(tOut, spkOut_trial, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Output', 'V', **labelStyle)
numInputSamples = int(inputRate * len(spkOut) / outputRate)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
# setup the output task
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn,
int(outputRate), spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn,
int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
timeout = numInputSamples / inputRate + 2
dataIn = daq.readAnalogInput(timeout)
mic_data = dataIn[0, :]
mic_data = mic_data / micVoltsPerPascal
daq.waitDoneInput()
daq.stopAnalogInput()
daq.clearAnalogInput()
daq.waitDoneOutput(stopAndClear=True)
print("ABR.calibrateClick: plotting data")
npts = len(mic_data)
# reshape and average the mic data
ptsPerRep = npts // ABRparams.nReps
mic_data = np.reshape(mic_data, (ABRparams.nReps, ptsPerRep))
mic_data = np.mean(mic_data, 0)
# plot mic data
npts = len(mic_data)
t = np.linspace(0, npts / inputRate, npts)
pl = appObj.ABR_micInput
pl.clear()
pl.plot(t, mic_data, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Response', 'Pa', **labelStyle)
idx1 = round(inputRate * ABRparams.stimOffset)
idx2 = idx1 + round(inputRate * ABRparams.stimDur)
mic_data = mic_data[idx1:idx2]
# apply high pass filter to get rid of LF components
# (b, a) = scipy.signal.butter(5, 100/inputRate, 'high')
# mic_data = scipy.signal.lfilter(b, a, mic_data)
rms = np.mean(mic_data**2)**0.5
rms = 20 * np.log10(rms / 2e-5)
appObj.ABRclick_RMS = rms
appObj.ABR_rms_label.setText("%0.1f dB" % rms)
print("ABR.calibrateClick: RMS= ", rms)
except Exception as ex:
traceback.print_exc(file=sys.stdout)
QtGui.QMessageBox.critical(
appObj, "Error",
"Error during collection. Check command line output for details")
appObj.isCollecting = False
QtGui.QApplication.processEvents(
) # check for GUI events, such as button presses
appObj.finishCollection()
def runABR(appObj, testMode=False):
print("runABR")
appObj.tabWidget.setCurrentIndex(3)
appObj.doneFlag = False
appObj.isCollecting = True
# trigRate = octfpga.GetTriggerRate()
audioHW = appObj.audioHW
bioamp = appObj.bioamp
outputRate = audioHW.DAQOutputRate
inputRate = audioHW.DAQInputRate
# freq_array2 = audioParams.freq[1, :]
freqArray = appObj.getFrequencyArray()
ABRparams = ABRParams(appObj)
if testMode:
testDataDir = os.path.join(appObj.basePath, 'exampledata',
'Speaker Calibration')
# filePath = os.path.join(testDataDir, 'AudioParams.pickle')
# f = open(filePath, 'rb')
# audioParams = pickle.load(f)
# f.close()
else:
# freqArray = appObj.getFrequencyArray()
i1 = appObj.ABR_freqLow_comboBox.currentIndex()
i2 = appObj.ABR_freqHigh_comboBox.currentIndex()
print("runABR: i1= ", i1, "i2= ", i2)
ampLow = appObj.ABRampLow_spinBox.value()
ampHigh = appObj.ABRampHigh_spinBox.value()
ampDelta = appObj.ABRampDelta_spinBox.value()
# ampArray = np.arange(ampLow, ampHigh, ampDelta)
#numSteps = np.floor((ampHigh - ampLow)/ampDelta) + 1
#ampArray = np.linspace(ampLow, ampHigh, numSteps)
if ampLow == ampHigh:
ampArray = np.array([ampLow])
else:
ampArray = np.arange(ampLow, ampHigh, ampDelta)
if ampArray[-1] != ampHigh:
ampArray = np.hstack((ampArray, ampHigh))
freqArray = freqArray[i1:i2 + 1]
if ABRparams.click:
freqArray = freqArray[0:1] # only use single freqeucny
clickRMS = appObj.ABRclick_RMS
# numSpk = audioParams.getNumSpeakers()
if not testMode:
from DAQHardware import DAQHardware
daq = DAQHardware()
chanNamesIn = [audioHW.mic_daqChan, bioamp.daqChan]
micVoltsPerPascal = audioHW.micVoltsPerPascal
# set input rate to three times the highest output frequency, to allow plus a
# inputRate = 3*freqArray[-1]
# print("runABR: outputRate= ", outputRate, " inputRate= ", inputRate)
# inputRate = np.max((inputRate, 6e3)) # inpute rate should be at least 6 kHz because ABR responses occur 0.3 - 3 kHz
# inputRate = outputRate / int(np.floor(outputRate / inputRate)) # pick closest input rate that evenly divides output rate
# print("runABR: inputRate(final)= ", inputRate)
try:
frameNum = 0
numFrames = len(freqArray) * len(ampArray)
isSaveDirInit = False
chanNameOut = audioHW.speakerL_daqChan
attenLines = audioHW.attenL_daqChan
freq_idx = 0
ABRdata = None
appObj.status_label.setText("Running")
appObj.progressBar.setValue(0)
for freq in freqArray:
spkOut_trial = makeABROutput(freq, ABRparams, audioHW)
npts = len(spkOut_trial)
spkOut = np.tile(spkOut_trial, ABRparams.nReps)
# invert every other trial, necessary for ABR/CAP output
for n in range(1, ABRparams.nReps, 2):
idx1 = n * npts
idx2 = (n + 1) * npts
spkOut[idx1:idx2] = -spkOut[idx1:idx2]
# plt.figure(5)
# plt.clf()
# plt.plot(spkOut)
tOut = np.linspace(0, npts / outputRate, npts)
print("runABR npts=%d len(spkOut_trial)= %d len(tOut)= %d" %
(npts, len(spkOut_trial), len(tOut)))
amp_idx = 0
ptsPerRep = int(inputRate * ABRparams.trialDur)
for amp in ampArray:
print("runABR freq=" + repr(freq), " amp= ", +amp,
" freq_idx= ", freq_idx, " amp_idx= ", amp_idx)
if ABRparams.click:
clickRMS = appObj.ABRclick_RMS
attenLvl = 0
vOut = 10**((amp - clickRMS) / 20)
minV = audioHW.speakerOutputRng[0]
if vOut < minV:
attenLvl = int(round(20 * np.log10(minV / vOut)))
vOut = minV
else:
vOut, attenLvl = audioHW.getCalibratedOutputVoltageAndAttenLevel(
freq, amp, 0)
print("runABR vOut= ", vOut, " atenLvl=", attenLvl)
if vOut > audioHW.speakerOutputRng[1]:
print("runABR vOut= ", vOut, " out of range")
continue
elif attenLvl > audioHW.maxAtten:
print("runABR attenLvl= ", attenLvl,
" gerater than maximum attenuation")
continue
# attenSig = AudioHardware.makeLM1972AttenSig(0)
if not testMode:
AudioHardware.Attenuator.setLevel(attenLvl, attenLines)
# daq.sendDigOutABRd(attenLines, attenSig)
# appObj.oct_hw.SetAttenLevel(0, attenLines)
pl = appObj.ABR_output
pl.clear()
endIdx = int(5e-3 * outputRate) # only plot first 5 ms
#pl.plot(t[0:endIdx], spkOut[0:endIdx], pen='b')
pl.plot(tOut, spkOut_trial, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Output', 'V', **labelStyle)
numInputSamples = ABRparams.nReps * int(
inputRate * len(spkOut_trial) / outputRate)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
# setup the output task
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn,
int(outputRate), vOut * spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn,
int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
timeout = numInputSamples / inputRate + 2
dataIn = daq.readAnalogInput(timeout)
mic_data = dataIn[0, :]
bioamp_data = dataIn[1, :]
mic_data = mic_data / micVoltsPerPascal
bioamp_data = bioamp_data / bioamp.gain
daq.waitDoneInput()
daq.stopAnalogInput()
daq.clearAnalogInput()
daq.waitDoneOutput(stopAndClear=True)
# npts = len(mic_data)
# t = np.linspace(0, npts/inputRate, npts)
# pl = appObj.ABR_micInput
# pl.clear()
# pl.plot(t, mic_data, pen='b')
#
# labelStyle = appObj.xLblStyle
# pl.setLabel('bottom', 'Time', 's', **labelStyle)
# labelStyle = appObj.yLblStyle
# pl.setLabel('left', 'Response', 'Pa', **labelStyle)
# def processABRData(mic_data, bioamp_data, nReps, freq, amp_idx, inputRate, ABRdataIn):
ABRptData, ABRdata = processABRData(mic_data, bioamp_data,
freq, freq_idx, amp_idx,
freqArray, ampArray,
inputRate, ABRdata,
ABRparams)
print("runABR: plotting data")
plotABRdata(appObj, ABRptData, ABRdata)
# if appObj.getSaveState():
# if not isSaveDirInit:
# saveDir = OCTCommon.initSaveDir(saveOpts, 'Speaker Calibration', audioParams=audioParams)
# isSaveDirInit = True
#
# if saveOpts.saveRaw:
# OCTCommon.saveRawData(mic_data, saveDir, frameNum, dataType=3)
idx1 = round(inputRate * ABRparams.stimOffset)
idx2 = idx1 + round(inputRate * ABRparams.stimDur)
mic_data = mic_data[idx1:idx2]
rms = np.mean(mic_data**2)**0.5
rms = 20 * np.log10(rms / 2e-5)
appObj.ABR_rms_label.setText("%0.1f dB" % rms)
QtGui.QApplication.processEvents(
) # check for GUI events, such as button presses
# if done flag, break out of loop
if appObj.doneFlag:
break
frameNum += 1
amp_idx += 1
appObj.progressBar.setValue(frameNum / numFrames)
# if done flag, break out of loop
if appObj.doneFlag:
break
freq_idx += 1
saveOpts = appObj.getSaveOpts()
workbook = appObj.excelWB
note = saveOpts.note
number = appObj.ABRnumber
name = 'ABR'
d = datetime.datetime.now()
timeStr = d.strftime('%H_%M_%S')
excelWS = CMPCommon.initExcelSpreadsheet(workbook, name, number,
timeStr, note)
appObj.ABRnumber += 1
#saveOpts.saveTracings = appObj.ABR_saveTracings_checkBox.isChecked()
saveOpts.saveTracings = True
saveDir = appObj.saveDir_lineEdit.text()
saveABRDataXLS(ABRdata, ABRparams, excelWS, saveOpts)
#saveABRData(ABRdata, trialDur, nReps, appObj.saveFileTxt_filepath, saveOpts, timeStr)
plotName = 'ABR %d %s %s' % (number, timeStr, saveOpts.note)
saveABRDataFig(ABRdata, ABRparams, saveDir, plotName, timeStr)
saveABRDataPickle(ABRdata, ABRparams, plotName, saveOpts, timeStr)
except Exception as ex:
traceback.print_exc(file=sys.stdout)
QtGui.QMessageBox.critical(
appObj, "Error",
"Error during collection. Check command line output for details")
# update the audio hardware speaker calibration
appObj.isCollecting = False
QtGui.QApplication.processEvents(
) # check for GUI events, such as button presses
appObj.finishCollection()
def runSpeakerCal(appObj, testMode=False):
print("runSpeakerCal")
appObj.tabWidget.setCurrentIndex(0)
appObj.doneFlag = False
appObj.isCollecting = True
# trigRate = octfpga.GetTriggerRate()
audioHW = appObj.audioHW
outputRate = audioHW.DAQOutputRate
inputRate = audioHW.DAQInputRate
if testMode:
testDataDir = os.path.join(appObj.basePath, 'exampledata',
'Speaker Calibration')
# filePath = os.path.join(testDataDir, 'AudioParams.pickle')
# f = open(filePath, 'rb')
# audioParams = pickle.load(f)
# f.close()
else:
freqArray = appObj.getFrequencyArray()
# numSpk = audioParams.getNumSpeakers()
numSpk = 1
cIdx = appObj.speaker_comboBox.currentIndex()
if cIdx > 0:
numSpk = 2
if not testMode:
from DAQHardware import DAQHardware
daq = DAQHardware()
chanNamesIn = [audioHW.mic_daqChan]
micVoltsPerPascal = audioHW.micVoltsPerPascal
# mode = 'chirp'
mode = ''
spCal = None
# freq_array2 = audioParams.freq[1, :]
try:
frameNum = 0
isSaveDirInit = False
trialDur = appObj.spCal_stimDuration_dblSpinBox.value() * 1e-3
freq_array = freqArray
freq_array2 = freqArray / 1.22
if numSpk == 1:
freq_array = np.concatenate((freq_array, freq_array2))
freq_array = np.sort(freq_array)
freq_array2 = freq_array
spCal = SpeakerCalData(np.vstack((freq_array, freq_array2)))
for spkNum in range(0, numSpk):
chanNameOut = audioHW.speakerL_daqChan
#attenLines = audioHW.attenL_daqChan
#attenLinesOther = audioHW.attenR_daqChan
spkIdx = 0
attenLvl1 = 0
attenLvl2 = audioHW.maxAtten
if spkNum == 2:
#chanNameOut = audioHW.speakerR_daqChan
#attenLines = audioHW.attenR_daqChan
#attenLinesOther = audioHW.attenL_daqChan
spkIdx = 1
attenLvl1 = audioHW.maxAtten
attenLvl2 = 0
freq_idx = 0
if not testMode:
audioHW.setAttenuatorLevel(attenLvl1, attenLvl2, daq)
# daq.sendDigOutCmd(attenLines, attenSig)
# appObj.oct_hw.SetAttenLevel(0, attenLines)
if mode == 'chirp':
tChirp = 1
f0 = 100
f1 = 100e3
k = (f1 - f0) / tChirp
nChirpPts = round(outputRate * tChirp)
t = np.linspace(0, tChirp, nChirpPts)
spkOut = np.cos(2 * np.pi * (f1 * t + (k / 2) * t**2))
pl = appObj.spCal_output
pl.clear()
endIdx = int(5e-3 * outputRate) # only plot first 5 ms
pl.plot(t[0:endIdx], spkOut[0:endIdx], pen='b')
numInputSamples = int(inputRate * len(spkOut) / outputRate)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn,
int(outputRate), spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn,
int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
mic_data = daq.readAnalogInput()
mic_data = mic_data[0, :]
mic_data_chirp = mic_data / micVoltsPerPascal
if not testMode:
daq.waitDoneOutput(stopAndClear=True)
daq.stopAnalogInput()
daq.clearAnalogInput()
npts = len(mic_data)
t = np.linspace(0, npts / inputRate, npts)
pl = appObj.spCal_micInput
pl.clear()
pl.plot(t, mic_data, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Response', 'Pa', **labelStyle)
# play refernce tone
refFreq = 4e3
tRef = 50e-3
nRefPts = round(outputRate * tRef)
t = np.linspace(0, tRef, nRefPts)
spkOut = np.cos(2 * np.pi * refFreq * t)
# apply envelope
i1 = round(outputRate * 1e-3)
i2 = nRefPts - i1
env = np.linspace(0, 1, i1)
spkOut[0:i1] = spkOut[0:i1] * env
spkOut[i2:] = spkOut[i2:] * (1 - env)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn,
int(outputRate), spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn,
int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
mic_data = daq.readAnalogInput()
mic_data_ref = mic_data / micVoltsPerPascal
if not testMode:
daq.waitDoneOutput(stopAndClear=True)
daq.stopAnalogInput()
daq.clearAnalogInput()
micData, spCal = processSpkCalDataChirp(
mic_data_chirp, mic_data_ref, inputRate, spCal, spkIdx, f0,
f1, refFreq)
pl = appObj.spCal_micFFT
pl.clear()
df = micData.fft_freq[1] - micData.fft_freq[0]
nf = len(micData.fft_freq)
i1 = int(freq_array[0] * 0.9 / df)
i2 = int(freq_array[-1] * 1.1 / df)
print("SpeakerCalibration: df= %0.3f i1= %d i2= %d nf= %d" %
(df, i1, i2, nf))
pl.plot(micData.fft_freq[i1:i2],
micData.fft_mag[i1:i2],
pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Frequency', 'Hz', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Magnitude', 'db SPL', **labelStyle)
pl = appObj.spCal_spkResp
pl.clear()
# pl.plot(1000*spCal.freq[spkIdx, :], spCal.magResp[spkIdx, :], pen="b", symbol='o')
pl.plot(freq_array,
spCal.magResp[spkIdx, :],
pen="b",
symbol='o')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Frequency', 'Hz', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Magnitude', 'db SPL', **labelStyle)
else:
for freq in freq_array:
print("runSpeakerCal freq=" + repr(freq))
spkOut = makeSpeakerCalibrationOutput(
freq, audioHW, trialDur)
npts = len(spkOut)
t = np.linspace(0, npts / outputRate, npts)
pl = appObj.spCal_output
pl.clear()
endIdx = int(5e-3 * outputRate) # only plot first 5 ms
pl.plot(t[0:endIdx], spkOut[0:endIdx], pen='b')
numInputSamples = int(inputRate * len(spkOut) / outputRate)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
# setup the output task
daq.setupAnalogOutput([chanNameOut],
audioHW.daqTrigChanIn,
int(outputRate), spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn,
audioHW.daqTrigChanIn,
int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
mic_data = daq.readAnalogInput()
mic_data = mic_data[0, :]
mic_data = mic_data / micVoltsPerPascal
if not testMode:
daq.stopAnalogInput()
daq.stopAnalogOutput()
daq.clearAnalogInput()
daq.clearAnalogOutput()
npts = len(mic_data)
t = np.linspace(0, npts / inputRate, npts)
pl = appObj.spCal_micInput
pl.clear()
pl.plot(t, mic_data, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Response', 'Pa', **labelStyle)
micData, spCal = processSpkCalData(mic_data, freq,
freq_idx, inputRate,
spCal, spkIdx, audioHW)
pl = appObj.spCal_micFFT
pl.clear()
df = micData.fft_freq[1] - micData.fft_freq[0]
nf = len(micData.fft_freq)
i1 = int(freq_array[0] * 0.9 / df)
i2 = int(freq_array[-1] * 1.1 / df)
print(
"SpeakerCalibration: df= %0.3f i1= %d i2= %d nf= %d" %
(df, i1, i2, nf))
pl.plot(micData.fft_freq[i1:i2],
micData.fft_mag[i1:i2],
pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Frequency', 'Hz', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Magnitude', 'db SPL', **labelStyle)
pl = appObj.spCal_spkResp
pl.clear()
# pl.plot(1000*spCal.freq[spkIdx, :], spCal.magResp[spkIdx, :], pen="b", symbol='o')
pl.plot(freq_array,
spCal.magResp[spkIdx, :],
pen="b",
symbol='o')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Frequency', 'Hz', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Magnitude', 'db SPL', **labelStyle)
freq_idx += 1
# if appObj.getSaveState():
# if not isSaveDirInit:
# saveDir = OCTCommon.initSaveDir(saveOpts, 'Speaker Calibration', audioParams=audioParams)
# isSaveDirInit = True
#
# if saveOpts.saveRaw:
# OCTCommon.saveRawData(mic_data, saveDir, frameNum, dataType=3)
QtGui.QApplication.processEvents(
) # check for GUI events, such as button presses
# if done flag, break out of loop
if appObj.doneFlag:
break
frameNum += 1
# if done flag, break out of loop
if appObj.doneFlag:
break
if not appObj.doneFlag:
saveDir = appObj.configPath
saveSpeakerCal(spCal, saveDir)
appObj.audioHW.loadSpeakerCalFromProcData(spCal)
appObj.spCal = spCal
except Exception as ex:
traceback.print_exc(file=sys.stdout)
QtGui.QMessageBox.critical(
appObj, "Error",
"Error during calibration. Check command line output for details")
8 # update the audio hardware speaker calibration
appObj.isCollecting = False
QtGui.QApplication.processEvents(
) # check for GUI events, such as button presses
appObj.finishCollection()
def runCM(appObj, testMode=False):
print("runCM")
appObj.tabWidget.setCurrentIndex(4)
appObj.doneFlag = False
appObj.isCollecting = True
# trigRate = octfpga.GetTriggerRate()
audioHW = appObj.audioHW
bioamp = appObj.bioamp
outputRate = audioHW.DAQOutputRate
inputRate = audioHW.DAQInputRate
# freq_array2 = audioParams.freq[1, :]
freqArray = appObj.getFrequencyArray()
if testMode:
testDataDir = os.path.join(appObj.basePath, 'exampledata', 'Speaker Calibration')
# filePath = os.path.join(testDataDir, 'AudioParams.pickle')
# f = open(filePath, 'rb')
# audioParams = pickle.load(f)
# f.close()
else:
# freqArray = appObj.getFrequencyArray()
i1 = appObj.CM_freqLow_comboBox.currentIndex()
i2 = appObj.CM_freqHigh_comboBox.currentIndex()
print("runCM: i1= ", i1, "i2= ", i2)
ampLow = appObj.CMampLow_spinBox.value()
ampHigh = appObj.CMampHigh_spinBox.value()
ampDelta = appObj.CMampDelta_spinBox.value()
# ampArray = np.arange(ampLow, ampHigh, ampDelta)
#numSteps = np.floor((ampHigh - ampLow)/ampDelta) + 1
#ampArray = np.linspace(ampLow, ampHigh, numSteps)
ampArray = np.arange(ampLow, ampHigh, ampDelta)
if ampArray[-1] != ampHigh:
ampArray = np.hstack((ampArray, ampHigh))
freqArray = freqArray[i1:i2+1]
# numSpk = audioParams.getNumSpeakers()
if not testMode:
from DAQHardware import DAQHardware
daq = DAQHardware()
chanNamesIn= [ audioHW.mic_daqChan, bioamp.daqChan]
micVoltsPerPascal = audioHW.micVoltsPerPascal
trialDur = appObj.CMstimDuration_dblSpinBox.value() * 1e-3
stimOffset = appObj.CMstimOffset_dblSpinBox.value() * 1e-3
nReps = appObj.CMtrialReps_spinBox.value()
# set input rate to three times the highest output frequency, to allow plus a
#inputRate = 3*freqArray[-1]
# inputRate = outputRate / int(np.floor(outputRate / inputRate)) # pick closest input rate that evenly divides output rate
try:
frameNum = 0
isSaveDirInit = False
chanNameOut = audioHW.speakerL_daqChan
attenLines = audioHW.attenL_daqChan
freq_idx = 0
CMdata = None
for freq in freqArray:
spkOut_trial = makeCMOutput(freq, trialDur, stimOffset, audioHW)
spkOut = np.tile(spkOut_trial, nReps)
npts = len(spkOut_trial)
tOut = np.linspace(0, npts/outputRate, npts)
print("runCM npts=%d len(spkOut_trial)= %d len(tOut)= %d" % (npts, len(spkOut_trial), len(tOut)))
amp_idx = 0
ptsPerRep = inputRate
for amp in ampArray:
print("runCM freq=" + repr(freq), " amp= ", + amp, " freq_idx= ", freq_idx, " amp_idx= ", amp_idx)
vOut, attenLvl = audioHW.getCalibratedOutputVoltageAndAttenLevel(freq, amp, 0)
# attenSig = AudioHardware.makeLM1972AttenSig(0)
if not testMode:
# AudioHardware.Attenuator.setLevel(attenLvl, attenLines)
audioHW.setAttenuatorLevel(attenLvl, audioHW.maxAtten, daq)
# daq.sendDigOutCmd(attenLines, attenSig)
# appObj.oct_hw.SetAttenLevel(0, attenLines)
pl = appObj.spCal_output
pl.clear()
endIdx = int(5e-3 * outputRate) # only plot first 5 ms
#pl.plot(t[0:endIdx], spkOut[0:endIdx], pen='b')
pl.plot(tOut, spkOut_trial, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Output', 'V', **labelStyle)
numInputSamples = nReps*int(inputRate*len(spkOut_trial)/outputRate)
if testMode:
# mic_data = OCTCommon.loadRawData(testDataDir, frameNum, dataType=3)
pass
else:
# setup the output task
daq.setupAnalogOutput([chanNameOut], audioHW.daqTrigChanIn, int(outputRate), vOut*spkOut)
daq.startAnalogOutput()
# setup the input task
daq.setupAnalogInput(chanNamesIn, audioHW.daqTrigChanIn, int(inputRate), numInputSamples)
daq.startAnalogInput()
# trigger the acquiisiton by sending ditital pulse
daq.sendDigTrig(audioHW.daqTrigChanOut)
timeout = numInputSamples/inputRate + 2
dataIn = daq.readAnalogInput(timeout)
mic_data = dataIn[0, :]
bioamp_data = dataIn[1, :]
mic_data = mic_data/micVoltsPerPascal
bioamp_data = bioamp_data/bioamp.gain
daq.waitDoneOutput(stopAndClear=True)
daq.stopAnalogInput()
daq.clearAnalogInput()
npts = len(mic_data)
t = np.linspace(0, npts/inputRate, npts)
pl = appObj.spCal_micInput
pl.clear()
pl.plot(t, mic_data, pen='b')
labelStyle = appObj.xLblStyle
pl.setLabel('bottom', 'Time', 's', **labelStyle)
labelStyle = appObj.yLblStyle
pl.setLabel('left', 'Response', 'Pa', **labelStyle)
# def processCMData(mic_data, bioamp_data, nReps, freq, amp_idx, inputRate, CMdataIn):
CMptData, CMdata = processCMData(mic_data, bioamp_data, nReps, freq, freq_idx, amp_idx, freqArray, ampArray, inputRate, CMdata)
print("runCM: plotting data")
plotCMdata(appObj, CMptData, CMdata)
# if appObj.getSaveState():
# if not isSaveDirInit:
# saveDir = OCTCommon.initSaveDir(saveOpts, 'Speaker Calibration', audioParams=audioParams)
# isSaveDirInit = True
#
# if saveOpts.saveRaw:
# OCTCommon.saveRawData(mic_data, saveDir, frameNum, dataType=3)
QtGui.QApplication.processEvents() # check for GUI events, such as button presses
# if done flag, break out of loop
if appObj.doneFlag:
break
frameNum += 1
amp_idx += 1
# if done flag, break out of loop
if appObj.doneFlag:
break
freq_idx += 1
saveOpts = appObj.getSaveOpts()
workbook = appObj.excelWB
note = saveOpts.note
number = appObj.CMnumber
name = 'CM'
d = datetime.datetime.now()
timeStr = d.strftime('%H_%M_%S')
excelWS = CMPCommon.initExcelSpreadsheet(workbook, name, number, timeStr, note)
appObj.CMnumber += 1
saveOpts.saveTracings = appObj.CM_saveTracings_checkBox.isChecked( )
saveDir = appObj.saveDir_lineEdit.text()
saveCMDataXLS(CMdata, trialDur, nReps, excelWS, saveOpts)
#saveCMData(CMdata, trialDur, nReps, appObj.saveFileTxt_filepath, saveOpts, timeStr)
plotName = 'CM %d %s %s' % (number, timeStr, saveOpts.note)
saveCMDataFig(CMdata, trialDur, nReps, saveDir, plotName, timeStr)
saveCMDataPickle(CMdata, trialDur, nReps, plotName, saveOpts, timeStr)
except Exception as ex:
traceback.print_exc(file=sys.stdout)
QtGui.QMessageBox.critical (appObj, "Error", "Error during collection. Check command line output for details")
8# update the audio hardware speaker calibration
appObj.isCollecting = False
QtGui.QApplication.processEvents() # check for GUI events, such as button presses
appObj.finishCollection()
