def createSequence():
# Set shimming
mri.iniSequence(expt, 20, shimming)
for repeIndex in range(nRepetitions):
# Initialize time
tEx = 20e3+repetitionTime*repeIndex
# Excitation pulse
t0 = tEx-hw.blkTime-rfExTime/2
mri.rfRecPulse(expt, t0, rfExTime, rfExAmp, 0)
# # Rx gating
# t0 = tEx+rfExTime/2+hw.deadTime
# mri.rxGate(expt, t0, acqTime)
# Crusher gradient
t0 = tEx+echoTime/2-crusherTime/2-gradRiseTime-hw.gradDelay-43
mri.gradTrap(expt, t0, gradRiseTime, crusherTime, 0.005, gSteps, axes[0], shimming)
mri.gradTrap(expt, t0, gradRiseTime, crusherTime, 0.005, gSteps, axes[1], shimming)
mri.gradTrap(expt, t0, gradRiseTime, crusherTime, 0.005, gSteps, axes[2], shimming)
# Refocusing pulse
t0 = tEx+echoTime/2-rfReTime/2-hw.blkTime
mri.rfRecPulse(expt, t0, rfReTime, rfReAmp, np.pi/2)
# Rx gating
t0 = tEx+echoTime-acqTime/2
mri.rxGate(expt, t0, acqTime)
# End sequence
mri.endSequence(expt, scanTime)
def createSequence():
# Set shimming
mri.iniSequence(expt, 20, shimming)
# Initialize time
tEx = 20e3
# Excitation pulse
t0 = tEx - hw.blkTime - rfExTime[indexExTime] / 2
if pulseShape == 'Rec':
mri.rfRecPulse(expt, t0, rfExTime[indexExTime], rfExAmp,
rfExPhase * np.pi / 180)
elif pulseShape == 'Sinc':
mri.rfSincPulse(expt, t0, rfExTime[indexExTime], 7, rfExAmp,
rfExPhase * np.pi / 180)
# First acquisition
t0 = tEx + rfExTime[indexExTime] / 2 + deadTime
mri.rxGate(expt, t0, tAcq)
# Refocusing pulse
t0 = tEx + tEcho / 2 - rfReTime[indexExTime] / 2 - hw.blkTime
if pulseShape == 'Rec':
mri.rfRecPulse(expt, t0, rfReTime[indexExTime], rfReAmp, np.pi / 2)
elif pulseShape == 'Sinc':
mri.rfSincPulse(expt, t0, rfReTime[indexExTime], 7, rfReAmp,
np.pi / 2)
# Second acquisition
t0 = tEx + tEcho - tAcq / 2
mri.rxGate(expt, t0, tAcq)
# End sequence
mri.endSequence(expt, tRepetition)
def createSequence(shimming):
# Set shimming
mri.iniSequence(expt, 20, shimming)
# Initialize time
tEx = 20e3
# Excitation pulse
t0 = tEx-hw.blkTime-rfExTime/2
if pulseShape=='Rec':
mri.rfRecPulse(expt, t0, rfExTime, rfExAmp, 0)
elif pulseShape=='Sinc':
mri.rfSincPulse(expt, t0, rfExTime, 7, rfExAmp, 0)
# Refocusing pulse
t0 = tEx+echoTime/2-rfReTime/2-hw.blkTime
if pulseShape=='Rec':
mri.rfRecPulse(expt, t0, rfReTime, rfReAmp, np.pi/2)
elif pulseShape=='Sinc':
mri.rfSincPulse(expt, t0, rfReTime, 7, rfReAmp, np.pi/2)
# Acquisition window
t0 = tEx+echoTime-acqTime/2
mri.rxGate(expt, t0, acqTime)
# End sequence
mri.endSequence(expt, repetitionTime)
def createSequence():
# Set shimming
mri.iniSequence(expt, 20, shimming)
t0 = 20
mri.rfRecPulse(expt, t0, rfExTime, rfExAmp, 0)
# End sequence
mri.endSequence(expt, rfExTime + 40)
def createSequence():
# Set shimming
mri.iniSequence(expt, 20, shimming)
for repeIndex in range(nRepetitions):
# Initialize time
tEx = 20e3 + np.max(tSat) + repetitionTime * repeIndex
# Inversion time for current iteration
inversionTime = tSat[repeIndex]
# Crusher gradient for inversion rf pulse
# t0 = tEx-inversionTime-crusherTime/2-gradRiseTime-hw.gradDelay-50
# mri.gradTrap(expt, t0, gradRiseTime, crusherTime, 0.005, gSteps, axes[0], shimming)
# mri.gradTrap(expt, t0, gradRiseTime, crusherTime, 0.005, gSteps, axes[1], shimming)
# mri.gradTrap(expt, t0, gradRiseTime, crusherTime, 0.005, gSteps, axes[2], shimming)
# Saturation pulse
t0 = tEx - inversionTime - hw.blkTime - rfReTime / 2
mri.rfRecPulse(expt, t0, rfReTime, rfReAmp, 0)
# Spoiler gradients to destroy residual transversal signal detected for ultrashort inversion times
# mri.gradTrap(expt, t0+hw.blkTime+rfReTime, gradRiseTime, inversionTime*0.5, 0.005, gSteps, axes[0], shimming)
# mri.gradTrap(expt, t0+hw.blkTime+rfReTime, gradRiseTime, inversionTime*0.5, 0.005, gSteps, axes[1], shimming)
# mri.gradTrap(expt, t0+hw.blkTime+rfReTime, gradRiseTime, inversionTime*0.5, 0.005, gSteps, axes[2], shimming)
# Excitation pulse
t0 = tEx - hw.blkTime - rfExTime / 2
mri.rfRecPulse(expt, t0, rfExTime, rfExAmp, 0)
# # Rx gating
# t0 = tEx+rfExTime/2+hw.deadTime
# mri.rxGate(expt, t0, acqTime)
# Crusher gradient
t0 = tEx + echoTime / 2 - crusherTime / 2 - gradRiseTime - hw.gradDelay - 50
mri.gradTrap(expt, t0, gradRiseTime, crusherTime, 0.005, gSteps,
axes[0], shimming)
mri.gradTrap(expt, t0, gradRiseTime, crusherTime, 0.005, gSteps,
axes[1], shimming)
mri.gradTrap(expt, t0, gradRiseTime, crusherTime, 0.005, gSteps,
axes[2], shimming)
# Refocusing pulse
t0 = tEx + echoTime / 2 - rfReTime / 2 - hw.blkTime
mri.rfRecPulse(expt, t0, rfReTime, rfReAmp, np.pi / 2)
# Rx gating
t0 = tEx + echoTime - acqTime / 2
mri.rxGate(expt, t0, acqTime)
# End sequence
mri.endSequence(expt, scanTime)
def createSequence():
phIndex = 0
nRepetitions = int(nPH / etl + dummyPulses)
scanTime = 20e3 + nRepetitions * repetitionTime
rawData['batchTime'] = scanTime * 1e-6
if rdGradTime == 0: # Check if readout gradient is dc or pulsed
dc = True
else:
dc = False
# Set shimming
mri.iniSequence(expt, 20, shimming)
for repeIndex in range(nRepetitions):
# Initialize time
tEx = 20e3 + repetitionTime * repeIndex + inversionTime + preExTime
# First I do a noise measurement.
if repeIndex == 0:
t0 = tEx - preExTime - inversionTime - 4 * acqTime
mri.rxGate(expt, t0, acqTime + 2 * addRdPoints / BW)
# Pre-excitation pulse
if repeIndex >= dummyPulses and preExTime != 0:
t0 = tEx - preExTime - inversionTime - rfExTime / 2 - hw.blkTime
mri.rfRecPulse(expt, t0, rfExTime, rfExAmp / 90 * 90, 0)
mri.gradTrap(expt, t0 + hw.blkTime + rfReTime, gradRiseTime,
preExTime * 0.5, -0.005, gSteps, axes[0],
shimming)
mri.gradTrap(expt, t0 + hw.blkTime + rfReTime, gradRiseTime,
preExTime * 0.5, -0.005, gSteps, axes[1],
shimming)
mri.gradTrap(expt, t0 + hw.blkTime + rfReTime, gradRiseTime,
preExTime * 0.5, -0.005, gSteps, axes[2],
shimming)
# Inversion pulse
if repeIndex >= dummyPulses and inversionTime != 0:
t0 = tEx - inversionTime - rfReTime / 2 - hw.blkTime
mri.rfRecPulse(expt, t0, rfReTime, rfReAmp / 180 * 180, 0)
mri.gradTrap(expt, t0 + hw.blkTime + rfReTime, gradRiseTime,
inversionTime * 0.5, 0.005, gSteps, axes[0],
shimming)
mri.gradTrap(expt, t0 + hw.blkTime + rfReTime, gradRiseTime,
inversionTime * 0.5, 0.005, gSteps, axes[1],
shimming)
mri.gradTrap(expt, t0 + hw.blkTime + rfReTime, gradRiseTime,
inversionTime * 0.5, 0.005, gSteps, axes[2],
shimming)
# DC gradient if desired
if (repeIndex == 0 or repeIndex >= dummyPulses) and dc == True:
t0 = tEx - 10e3
mri.gradTrap(expt, t0, gradRiseTime,
10e3 + echoSpacing * (etl + 1), rdGradAmplitude,
gSteps, axes[0], shimming)
# Excitation pulse
t0 = tEx - hw.blkTime - rfExTime / 2
mri.rfRecPulse(expt, t0, rfExTime, rfExAmp, drfPhase)
# Dephasing readout
t0 = tEx + rfExTime / 2 - hw.gradDelay
if (repeIndex == 0 or repeIndex >= dummyPulses) and dc == False:
mri.gradTrap(expt, t0, gradRiseTime, rdDephTime,
rdDephAmplitude * rdPreemphasis, gSteps, axes[0],
shimming)
# Echo train
for echoIndex in range(etl):
tEcho = tEx + echoSpacing * (echoIndex + 1)
# Refocusing pulse
t0 = tEcho - echoSpacing / 2 - rfReTime / 2 - hw.blkTime
mri.rfRecPulse(expt, t0, rfReTime, rfReAmp,
drfPhase + np.pi / 2)
# Dephasing phase and slice gradients
if repeIndex >= dummyPulses: # This is to account for dummy pulses
t0 = tEcho - echoSpacing / 2 + rfReTime / 2 - hw.gradDelay
mri.gradTrap(expt, t0, gradRiseTime, phGradTime,
phGradients[phIndex], gSteps, axes[1],
shimming)
mri.gradTrap(expt, t0, gradRiseTime, phGradTime,
slGradients[slIndex], gSteps, axes[2],
shimming)
# Readout gradient
if (repeIndex == 0 or repeIndex >= dummyPulses
) and dc == False: # This is to account for dummy pulses
t0 = tEcho - rdGradTime / 2 - gradRiseTime - hw.gradDelay
mri.gradTrap(expt, t0, gradRiseTime, rdGradTime,
rdGradAmplitude, gSteps, axes[0], shimming)
# Rx gate
if (repeIndex == 0 or repeIndex >= dummyPulses):
t0 = tEcho - acqTime / 2 - addRdPoints / BW
mri.rxGate(expt, t0, acqTime + 2 * addRdPoints / BW)
# Rephasing phase and slice gradients
t0 = tEcho + acqTime / 2 + addRdPoints / BW - hw.gradDelay
if (echoIndex < etl - 1 and repeIndex >= dummyPulses):
mri.gradTrap(expt, t0, gradRiseTime, phGradTime,
-phGradients[phIndex], gSteps, axes[1],
shimming)
mri.gradTrap(expt, t0, gradRiseTime, phGradTime,
-slGradients[slIndex], gSteps, axes[2],
shimming)
elif (echoIndex == etl - 1 and repeIndex >= dummyPulses):
mri.gradTrap(expt, t0, gradRiseTime, phGradTime,
+phGradients[phIndex], gSteps, axes[1],
shimming)
mri.gradTrap(expt, t0, gradRiseTime, phGradTime,
+slGradients[slIndex], gSteps, axes[2],
shimming)
# Update the phase and slice gradient
if repeIndex >= dummyPulses:
phIndex += 1
if repeIndex == nRepetitions - 1:
mri.endSequence(expt, scanTime)
def createSequence():
nRepetitions = int(1 + dummyPulses)
scanTime = 20e3 + nRepetitions * repetitionTime
rawData['scanTime'] = scanTime * 1e-6
print('Scan Time = ', (scanTime * 1e-6), 's')
if rdGradTime == 0: # Check if readout gradient is dc or pulsed
dc = True
else:
dc = False
# Set shimming
mri.iniSequence(expt, 20, shimming)
for repeIndex in range(nRepetitions):
# Initialize time
tEx = 20e3 + repetitionTime * repeIndex + inversionTime
# Inversion pulse
if repeIndex >= dummyPulses and inversionTime != 0:
t0 = tEx - inversionTime - rfReTime / 2 - hw.blkTime
mri.rfRecPulse(expt, t0, rfReTime, rfReAmp / 180 * 180, 0)
mri.gradTrap(expt, t0 + hw.blkTime + rfReTime, gradRiseTime,
inversionTime * 0.5, 0.005, gSteps, axes[0],
shimming)
mri.gradTrap(expt, t0 + hw.blkTime + rfReTime, gradRiseTime,
inversionTime * 0.5, 0.005, gSteps, axes[1],
shimming)
mri.gradTrap(expt, t0 + hw.blkTime + rfReTime, gradRiseTime,
inversionTime * 0.5, 0.005, gSteps, axes[2],
shimming)
# DC radout gradient if desired
if (repeIndex == 0 or repeIndex >= dummyPulses) and dc == True:
t0 = tEx - rfExTime / 2 - gradRiseTime - hw.gradDelay
mri.gradTrap(expt, t0, echoSpacing * (nPH + 1),
rdGradAmplitude, axes[0])
# Slice selection gradient dephasing
if (slThickness != 0 and repeIndex >= dummyPulses):
t0 = tEx - rfExTime / 2 - gradRiseTime - hw.gradDelay
mri.gradTrap(expt, t0, gradRiseTime, rfExTime, ssGradAmplitude,
gSteps, axes[2], shimming)
# Excitation pulse
t0 = tEx - hw.blkTime - rfExTime / 2
if rfEnvelope == 'Rec':
mri.rfRecPulse(expt, t0, rfExTime, rfExAmp,
drfPhase * np.pi / 180)
elif rfEnvelope == 'Sinc':
mri.rfSincPulse(expt, t0, rfExTime, rfSincLobes, rfExAmp,
drfPhase * np.pi / 180)
# Slice selection gradient rephasing
if (slThickness != 0 and repeIndex >= dummyPulses):
t0 = tEx + rfExTime / 2 + gradRiseTime - hw.gradDelay
if rfEnvelope == 'Rec':
mri.gradTrap(expt, t0, gradRiseTime, 0.,
-ssGradAmplitude * ssPreemphasis, gSteps,
axes[2], shimming)
elif rfEnvelope == 'Sinc':
mri.gradTrap(expt, t0, gradRiseTime, ssDephGradTime,
-ssGradAmplitude * ssPreemphasis, gSteps,
axes[2], shimming)
# Dephasing readout
t0 = tEx + rfExTime / 2 - hw.gradDelay
if (repeIndex == 0 or repeIndex >= dummyPulses) and dc == False:
mri.gradTrap(expt, t0, gradRiseTime, rdDephTime,
rdDephAmplitude * rdPreemphasis, gSteps, axes[0],
shimming)
# Echo train
for echoIndex in range(nPH):
tEcho = tEx + echoSpacing * (echoIndex + 1)
# Crusher gradient
if repeIndex >= dummyPulses:
t0 = tEcho - echoSpacing / 2 - rfReTime / 2 - gradRiseTime - hw.gradDelay - crusherDelay
mri.gradTrap(expt, t0, gradRiseTime,
rfReTime + 2 * crusherDelay, ssGradAmplitude,
gSteps, axes[2], shimming)
# Refocusing pulse
t0 = tEcho - echoSpacing / 2 - rfReTime / 2 - hw.blkTime
if rfEnvelope == 'Rec':
mri.rfRecPulse(expt, t0, rfReTime, rfReAmp,
np.pi / 2 + drfPhase * np.pi / 180)
if rfEnvelope == 'Sinc':
mri.rfSincPulse(expt, t0, rfReTime, rfSincLobes, rfReAmp,
np.pi / 2 + drfPhase * np.pi / 180)
# Dephasing phase gradient
t0 = tEcho - echoSpacing / 2 + rfReTime / 2 - hw.gradDelay
if repeIndex >= dummyPulses: # This is to account for dummy pulses
mri.gradTrap(expt, t0, gradRiseTime, phGradTime,
phGradients[echoIndex], gSteps, axes[1],
shimming)
# Readout gradient
t0 = tEcho - rdGradTime / 2 - gradRiseTime - hw.gradDelay
if (repeIndex == 0 or repeIndex >= dummyPulses
) and dc == False: # This is to account for dummy pulses
mri.gradTrap(expt, t0, gradRiseTime, rdGradTime,
rdGradAmplitude, gSteps, axes[0], shimming)
# Rx gate
if (repeIndex == 0 or repeIndex >= dummyPulses):
t0 = tEcho - acqTime / 2 - addRdPoints / BW
mri.rxGate(expt, t0, acqTime + 2 * addRdPoints / BW)
# Rephasing phase and slice gradients
t0 = tEcho + acqTime / 2 + addRdPoints / BW - hw.gradDelay
if (echoIndex < nPH - 1 and repeIndex >= dummyPulses):
mri.gradTrap(expt, t0, gradRiseTime, phGradTime,
-phGradients[echoIndex], gSteps, axes[1],
shimming)
elif (echoIndex == nPH - 1 and repeIndex >= dummyPulses):
mri.gradTrap(expt, t0, gradRiseTime, phGradTime,
+phGradients[echoIndex], gSteps, axes[1],
shimming)
if repeIndex == nRepetitions - 1:
mri.endSequence(expt, scanTime)
def createSequence(phIndex=0, slIndex=0, repeIndexGlobal=0, rewrite=True):
repeIndex = 0
if rdGradTime == 0: # Check if readout gradient is dc or pulsed
dc = True
else:
dc = False
acqPoints = 0
orders = 0
# Check in case of dummy pulse fill the cache
if (dummyPulses > 0 and etl * nRD * 2 > hw.maxRdPoints) or (
dummyPulses == 0 and etl * nRD > hw.maxRdPoints):
print('ERROR: Too many acquired points.')
return ()
# Set shimming
mri.iniSequence(expt, 20, shimming, rewrite=rewrite)
while acqPoints + etl * nRD <= hw.maxRdPoints and orders <= hw.maxOrders and repeIndexGlobal < nRepetitions:
# Initialize time
tEx = 20e3 + repetitionTime * repeIndex + inversionTime + preExTime
# First I do a noise measurement.
if repeIndex == 0:
t0 = tEx - preExTime - inversionTime - 4 * acqTime
mri.rxGate(expt, t0, acqTime + 2 * addRdPoints / BW)
# Pre-excitation pulse
if repeIndex >= dummyPulses and preExTime != 0:
t0 = tEx - preExTime - inversionTime - rfExTime / 2 - hw.blkTime
mri.rfRecPulse(expt, t0, rfExTime, rfExAmp / 90 * 90, 0)
mri.gradTrapAmplitude(expt, t0 + hw.blkTime + rfReTime, -0.005,
preExTime * 0.5, axes[0], shimming,
orders)
mri.gradTrapAmplitude(expt, t0 + hw.blkTime + rfReTime, -0.005,
preExTime * 0.5, axes[1], shimming,
orders)
mri.gradTrapAmplitude(expt, t0 + hw.blkTime + rfReTime, -0.005,
preExTime * 0.5, axes[2], shimming,
orders)
# Inversion pulse
if repeIndex >= dummyPulses and inversionTime != 0:
t0 = tEx - inversionTime - rfReTime / 2 - hw.blkTime
mri.rfPulse(expt, t0, rfReTime, rfReAmp / 180 * 180, 0)
mri.gradTrapAmplitude(expt, t0 + hw.blkTime + rfReTime, 0.005,
inversionTime * 0.5, axes[0], shimming,
orders)
mri.gradTrapAmplitude(expt, t0 + hw.blkTime + rfReTime, 0.005,
inversionTime * 0.5, axes[1], shimming,
orders)
mri.gradTrapAmplitude(expt, t0 + hw.blkTime + rfReTime, 0.005,
inversionTime * 0.5, axes[2], shimming,
orders)
# DC gradient if desired
if (repeIndex == 0 or repeIndex >= dummyPulses) and dc == True:
t0 = tEx - 10e3
mri.gradTrapAmplitude(expt, t0, rdGradAmplitude,
10e3 + echoSpacing * (etl + 1), axes[0],
shimming, orders)
# Excitation pulse
t0 = tEx - hw.blkTime - rfExTime / 2
mri.rfRecPulse(expt, t0, rfExTime, rfExAmp, drfPhase)
# Dephasing readout
if (repeIndex == 0 or repeIndex >= dummyPulses) and dc == False:
t0 = tEx + rfExTime / 2 - hw.gradDelay
mri.gradTrapAmplitude(expt, t0,
rdDephAmplitude * rdPreemphasis,
rdDephTime, axes[0], shimming, orders)
# Echo train
for echoIndex in range(etl):
tEcho = tEx + echoSpacing * (echoIndex + 1)
# Refocusing pulse
t0 = tEcho - echoSpacing / 2 - rfReTime / 2 - hw.blkTime
mri.rfRecPulse(expt, t0, rfReTime, rfReAmp,
drfPhase + np.pi / 2)
# Dephasing phase and slice gradients
if repeIndex >= dummyPulses: # This is to account for dummy pulses
t0 = tEcho - echoSpacing / 2 + rfReTime / 2 - hw.gradDelay
mri.gradTrapAmplitude(expt, t0, phGradients[phIndex],
phGradTime, axes[1], shimming,
orders)
mri.gradTrapAmplitude(expt, t0, slGradients[slIndex],
phGradTime, axes[2], shimming,
orders)
# Readout gradient
if (repeIndex == 0 or repeIndex >= dummyPulses
) and dc == False: # This is to account for dummy pulses
t0 = tEcho - rdGradTime / 2 - gRiseTimeRd - hw.gradDelay
mri.gradTrapAmplitude(expt, t0, rdGradAmplitude,
rdGradTime + 2 * gRiseTimeRd,
axes[0], shimming, orders)
# Rx gate
if (repeIndex == 0 or repeIndex >= dummyPulses):
t0 = tEcho - acqTime / 2 - addRdPoints / BW
mri.rxGate(expt, t0, acqTime + 2 * addRdPoints / BW)
acqPoints += nRD
# Rephasing phase and slice gradients
t0 = tEcho + acqTime / 2 + addRdPoints / BW - hw.gradDelay
if (echoIndex < etl - 1 and repeIndex >= dummyPulses):
mri.gradTrapAmplitude(expt, t0, -phGradients[phIndex],
phGradTime, axes[1], shimming,
orders)
mri.gradTrapAmplitude(expt, t0, -slGradients[slIndex],
phGradTime, axes[2], shimming,
orders)
elif (echoIndex == etl - 1 and repeIndex >= dummyPulses):
mri.gradTrapAmplitude(expt, t0, phGradients[phIndex],
phGradTime, axes[1], shimming,
orders)
mri.gradTrapAmplitude(expt, t0, slGradients[slIndex],
phGradTime, axes[2], shimming,
orders)
# Update the phase and slice gradient
if repeIndex >= dummyPulses:
if phIndex == nPH - 1:
phIndex = 0
slIndex += 1
else:
phIndex += 1
if repeIndex >= dummyPulses:
repeIndexGlobal += 1 # Update the global repeIndex
repeIndex += 1 # Update the repeIndex after the ETL
# Turn off the gradients after the end of the batch
mri.endSequence(expt, repeIndex * repetitionTime)
# Return the output variables
return (phIndex, slIndex, repeIndexGlobal)
def createSequence(phIndex=0, slIndex=0, repeIndexGlobal=0, rewrite=True):
repeIndex = 0
acqPoints = 0
orders = 0
# check in case of dummy pulse filling the cache
if (dummyPulses > 0 and nRD * 3 > hw.maxRdPoints) or (
dummyPulses == 0 and nRD * 2 > hw.maxRdPoints):
print(
'ERROR: Too many acquired points or orders to the red pitaya.')
return ()
# Set shimming
mri.iniSequence(expt, 20, shimming, rewrite=rewrite)
# Run sequence batch
while acqPoints + nRD <= hw.maxRdPoints and orders <= hw.maxOrders and repeIndexGlobal < nRepetitions:
# Initialize time
tEx = 20e3 + repetitionTime * repeIndex
# First I do a noise measurement
if repeIndex == 0:
t0 = tEx - 4 * acqTime
mri.rxGate(expt, t0, acqTime + 2 * addRdPoints / BW)
acqPoints += nRD
# Excitation pulse
t0 = tEx - hw.blkTime - rfExTime / 2
mri.rfRecPulse(expt, t0, rfExTime, rfExAmp, 0.)
# Dephasing readout, phase and slice
if (repeIndex == 0 or repeIndex >= dummyPulses):
t0 = tEx + rfExTime / 2 - hw.gradDelay
mri.gradTrap(expt, t0, gradRiseTime, dephGradTime,
rdDephAmplitude, gSteps, axes[0], shimming)
orders = orders + gSteps * 2
if repeIndex >= dummyPulses:
t0 = tEx + rfExTime / 2 - hw.gradDelay
mri.gradTrap(expt, t0, gradRiseTime, dephGradTime,
phGradients[phIndex], gSteps, axes[1], shimming)
mri.gradTrap(expt, t0, gradRiseTime, dephGradTime,
slGradients[slIndex], gSteps, axes[2], shimming)
orders = orders + gSteps * 4
# Rephasing readout gradient
if (repeIndex == 0 or repeIndex >= dummyPulses):
t0 = tEx + echoTime - rdGradTime / 2 - gradRiseTime - hw.gradDelay
mri.gradTrap(expt, t0, gradRiseTime, rdGradTime,
rdGradAmplitude, gSteps, axes[0], shimming)
orders = orders + gSteps * 2
# Rx gate
if (repeIndex == 0 or repeIndex >= dummyPulses):
t0 = tEx + echoTime - acqTime / 2 - addRdPoints / BW
mri.rxGate(expt, t0, acqTime + 2 * addRdPoints / BW)
acqPoints += nRD
# Spoiler
if spoiler:
t0 = tEx + echoTime + rdGradTime / 2 + gradRiseTime - hw.gradDelay
mri.gradTrap(expt, t0, gradRiseTime, dephGradTime,
-rdDephAmplitude, gSteps, axes[0], shimming)
orders = orders + gSteps * 2
# Update the phase and slice gradient
if repeIndex >= dummyPulses:
if phIndex == nPH - 1:
phIndex = 0
slIndex += 1
else:
phIndex += 1
if repeIndex >= dummyPulses:
repeIndexGlobal += 1 # Update the global repeIndex
repeIndex += 1 # Update the repeIndex after the ETL
# Turn off the gradients after the end of the batch
mri.endSequence(expt, repeIndex * repetitionTime)
# Return the output variables
return (phIndex, slIndex, repeIndexGlobal, acqPoints)
