192 lines
7.7 KiB
Python
192 lines
7.7 KiB
Python
# -*- coding: iso-8859-1 -*-
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from xml.etree import cElementTree as ET
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import time
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TXEnableDelay = 2e-6
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TXEnableValue = 0b0001 # TTL line blanking RF amplifier (bit 0)
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TXPulseValue = 0b0010 # TTL line triggering RF pulses (bit 1)
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ADCSensitivity = 0.5 # voltage span for ADC
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def experiment(): # CosCos-Stimulated Echos for central excitation
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# set up acquisition parameters:
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pars = {}
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pars['P90'] = 5.3e-6 # 90-degree pulse length (s)
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pars['SF'] = 95.2e6 # spectrometer frequency (Hz)
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pars['O1'] = 0 # offset from SF (Hz)
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pars['SW'] = 5e6 # spectral window (Hz)
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pars['SI'] = 8*1024 # number of acquisition points
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pars['NS'] = 32*32*2#*3 # number of scans # multiple of 32
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pars['DS'] = 0 # number of dummy scans
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pars['RD'] = 0.1 # delay between scans (s) (Recycle Delay)
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pars['TAU'] = 0.014*7 # delay between SatRec and experiment (s)
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pars['D1'] = 20e-6 # delay after first pulse, or short tau (s)
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pars['D2'] = 10e-6 # delay after second pulse, or long tau (s)
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pars['D_PREAQ'] = 5e-6
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pars['PHA'] =335 # receiver phase (degree)
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### SatRec
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pars['D3'] = 1e-5 # shortest SatRec delay
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pars['D4'] = 1e-3 # longest SatRec delay
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pars["NECH"] = 12 # number of saturation pulse
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###
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pars['DATADIR'] = '/home/fprak/Desktop/' # data directory
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pars['OUTFILE'] = None # output file name
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# specify a variable parameter (optional):
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pars['tp'] = [20e-6,50e-6,90e-6,150e-6,300e-6]#[12e-6, 20e-6, 30e-6, 50e-6, 75e-6, 90e-6, 125e-6, 200e-6]
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pars['VAR_PAR'] = 'D2' # variable parameter name (a string)
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start = 20e-6 # starting value
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stop =0.3 # end value
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steps = 21 # number of values
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log_scale = True # log scale flag
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stag_range = True # staggered range flag
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# check parameters for safety:
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if pars['PHA'] < 0:
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pars['PHA'] = 360 + pars['PHA']
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if pars['P90'] > 20e-6:
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raise Exception("Pulse too long!!!")
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# check whether a variable parameter is named:
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var_key = pars.get('VAR_PAR')
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if var_key == 'P90' and (start > 20e-6 or stop > 20e-6):
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raise Exception("Pulse too long!!!")
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# start the experiment:
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if var_key:
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# this is an arrayed experiment:
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if log_scale:
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array = log_range(start,stop,steps)
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else:
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array = lin_range(start,stop,steps)
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if stag_range:
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array = staggered_range(array, size = 3)
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# estimate time by looping once over everything
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duration = 0
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for tp in pars["tp"]:
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for index, var_par_value in enumerate(array):
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# assign each var_key the corresponding var_value
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pars[var_key] = var_par_value
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# parse state tree
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e_xml = ET.fromstring(spinal32_experiment(pars, 0).write_xml_string())
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# sum up all time=x states
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for a_state in e_xml.iter("state"):
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duration += float(a_state.get("time"))*(pars['NS'] + pars['DS'])
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print duration
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t = time.localtime(duration)
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print "\n\nINFO: Experiment will be finnished in: %id %ih %im" % (t.tm_mday-1, t.tm_hour-1, t.tm_min)
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print "INFO: Experiment will be finnished at: %s\n\n" % (time.ctime(time.time() + duration))
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# loop for a variable parameter:
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for tp in pars['tp']:
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pars['D1'] = tp
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for index, pars[var_key] in enumerate(array):
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print 'Arrayed experiment for '+var_key+': run = '+str(index+1)+\
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' out of '+str(len(pars['tp'])*array.size)+': value = ' + str(tp) + ' / '+str(pars[var_key])
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# loop for accumulation:
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for run in xrange(pars['NS']+pars['DS']):
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yield spinal32_experiment(pars, run)
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synchronize()
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else:
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# estimate the experiment time:
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seconds = (pars['D1']*2 + pars['D2'] + pars['RD']) * (pars['NS']+ pars['DS'])
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m, s = divmod(seconds, 60)
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h, m = divmod(m, 60)
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print '%s%02d:%02d:%02d' % ('Experiment time estimated: ', h, m, s)
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# loop for accumulation:
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for run in xrange(pars['NS']+pars['DS']):
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yield spinal32_experiment(pars, run)
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# the pulse program:
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def spinal32_experiment(pars, run):
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e=Experiment()
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dummy_scans = pars.get('DS')
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if dummy_scans:
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run -= dummy_scans
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pars['PROG'] = 'coscos32_experiment'
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# phase cycle by F. Qi et al. [JMR 169 (2004) 225-239] with 3rd-phase invertion
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pars['PH1'] = [270, 270, 270, 270, 90, 90, 90, 90, 270, 270, 270, 270, 90, 90, 90, 90, 180, 180, 180, 180, 0,0,0,0, 180, 180, 180, 180, 0,0,0,0]
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pars['PH3'] = [270, 270, 90, 90, 270, 270, 90, 90, 270, 270, 90, 90, 270, 270, 90, 90, 180, 180, 0, 0, 180, 180, 0, 0, 180, 180, 0, 0, 180, 180, 0, 0]
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pars['PH4'] = [270, 90, 270, 90, 270, 90, 270, 90, 180, 0, 180, 0, 180, 0, 180, 0, 270, 90, 270, 90, 270, 90, 270, 90, 180, 0, 180, 0, 180, 0, 180, 0]
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pars['PH2'] = [270, 90, 90, 270, 90, 270, 270, 90, 180, 0, 0, 180, 0, 180, 180, 0, 270, 90, 90, 270, 90, 270, 270, 90, 180, 0, 0, 180, 0, 180, 180, 0]
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# read in variables:
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P90 = pars['P90']
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SF = pars['SF']
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O1 = pars['O1']
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RD = pars['RD']
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D1 = pars['D1']
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D2 = pars['D2']
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D3 = pars['D3']
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D4 = pars['D4']
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D_PREAQ = pars['D_PREAQ']
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TAU = pars['TAU']
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NECH = pars['NECH']
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PH1 = pars['PH1'][run%len(pars['PH1'])]
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PH3 = pars['PH3'][run%len(pars['PH3'])]
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PH4 = pars['PH4'][run%len(pars['PH4'])]
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PH2 = pars['PH2'][run%len(pars['PH2'])]
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PHA = pars['PHA']
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# set sampling parameters:
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SI = pars['SI']
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SW = pars['SW']
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# run the pulse program:
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# saturation:
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# set variable delay list for saturation pulses:
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vdlist = log_range(D4, D3, NECH-1)
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e.wait(RD) # relaxation delay between scans
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e.set_frequency(SF+O1, phase=PH1) # set frequency and phase for saturation pulses
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e.ttl_pulse(TXEnableDelay, value=TXEnableValue) # enable RF amplifier
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e.ttl_pulse(P90, value=TXEnableValue|TXPulseValue) # apply 90-degree pulse
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for delay in vdlist[::-1]:
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e.wait(delay-P90-TXEnableDelay) # wait for next saturation pulse
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e.ttl_pulse(TXEnableDelay, value=TXEnableValue) # enable RF amplifier
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e.ttl_pulse(P90, value=TXEnableValue|TXPulseValue) # apply 90-degree pulse
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# recovery:
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e.set_phase(PH1)
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e.wait(TAU-0.5e-6) # wait for tau
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e.ttl_pulse(TXEnableDelay, value=TXEnableValue)
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e.ttl_pulse(P90, value=TXEnableValue|TXPulseValue) # 90-degree pulse
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e.set_phase(PH3)
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e.wait(D1-P90-TXEnableDelay-0.5e-6) # 'short tau'
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e.ttl_pulse(TXEnableDelay, value=TXEnableValue)
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e.ttl_pulse(P90, value=TXEnableValue|TXPulseValue) # 90-degree pulse
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e.set_phase(PH4)
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e.wait(D2-P90-TXEnableDelay-0.5e-6) # 'long tau'
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e.ttl_pulse(TXEnableDelay, value=TXEnableValue)
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e.ttl_pulse(P90, value=TXEnableValue|TXPulseValue) # 90-degree pulse
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e.set_phase(PHA)
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e.wait(D1-P90/2-0.5e-6-D_PREAQ) # 'short tau'
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e.record(SI, SW, sensitivity=ADCSensitivity) # acquisition
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# write experiment parameters:
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for key in pars.keys():
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e.set_description(key, pars[key]) # acqusition parameters
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e.set_description('run', run) # current scan
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e.set_description('rec_phase', -PH2) # current receiver phase
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return e |