def runTransmission(acqEntries, configSetting):
for seqIndex in range(len(acqEntries)):
acqEntry = acqEntries[seqIndex]
sampleEntry = samples[acqEntry['sample']]
# Click if runnable
if isRunTransmission(acqEntry['runId']):
# Set sample
quokka.setSample(sampleEntry['position'], sampleEntry['name'], sampleEntry['description'], sampleEntry['thickness'], isDriveSampleStage())
# Set transmission flag
sics.set('transmissionflag', 1)
sleep(0.1)
# Set attenuation
# Acquire data
mode = configSetting['transmissionMode']
preset = configSetting['transmissionPreset']
updateTransmissionRunState(acqEntry['runId'], True)
log('Start transmission run on ' + sampleEntry['name'] + ' ...')
dataFile = scan(mode, dataType.HISTOGRAM_XY, preset, getForcedScanValue(sampleEntry['type']))
# Update data file name
updateTransmissionRunState(acqEntry['runId'], False)
updateTransmissionDetails(acqEntry['runId'], dataFile[-14:-7], getLambdaValue(), getAttValue(), getL1Value(), getL2Value())
# Print instrument state
sleep(0.2)
quokka.printQuokkaSettings()
def selBsxz(beamstop, bx, bz):
# Get command controller
sicsController = sics.getSicsController()
commandController = sicsController.findComponentController(
'/commands/beamstops/selbsxz')
# Configuring command properties
sics.hset(commandController, '/bs', beamstop)
sics.hset(commandController, '/bx', bx)
sics.hset(commandController, '/bz', bz)
cnt = 0
while cnt < 20:
try:
commandController.syncExecute()
break
except SicsExecutionException, e:
em = str(e.getMessage())
if em.__contains__('Interrupted'):
raise e
log('retry selecting beam stop ' + str(beamstop))
time.sleep(1)
while not sicsController.getServerStatus().equals(
ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.3)
cnt += 1
def driveFlipper(value):
# Clear interrupt flag
sics.getSicsController().clearInterrupt()
# Set timeout to 120 sec
timeout = 120
counter = 0
# Set flipper
sics.set('/instrument/flipper/set_flip_on', value)
log('Driving flipper to ' + str(value) + "...")
while True:
flipperValue = sics.getValue('/instrument/flipper/flip_on').getIntData()
# Test if value is set
if flipperValue == value:
log('Flipper is set to ' + str(flipperValue))
return
else:
# Check timeout
if counter >= timeout:
raise Exception('Failed to set flipper to ' + str(value))
# Check interrupt
if sics.getSicsController().isInterrupted() == 1:
raise Exception('SICS has been interrupted')
# Otherwise sleep for 1 sec
counter += 1
time.sleep(1)
def driveFlipper(value):
# Clear interrupt flag
sics.getSicsController().clearInterrupt()
# Set timeout to 120 sec
timeout = 120
counter = 0
# Set flipper
sics.set('/instrument/flipper/set_flip_on', value)
log('Driving flipper to ' + str(value) + "...")
while True:
flipperValue = sics.getValue('/instrument/flipper/flip_on').getIntData()
# Test if value is set
if flipperValue == value:
log('Flipper is set to ' + str(flipperValue))
return
else:
# Check timeout
if counter >= timeout:
raise Exception('Failed to set flipper to ' + str(value))
# Check interrupt
if sics.getSicsController().isInterrupted() == 1:
raise Exception('SICS has been interrupted')
# Otherwise sleep for 1 sec
counter += 1
time.sleep(1)
def driveToLoadPosition():
log('Driving sample holder to load position')
# Find soft upper limit
upperlimit = sics.getValue('/sample/sample_x/softupperlim').getFloatData()
# Use the soft lower limit as the load position
loadPosition = math.floor(upperlimit)
sics.drive('samx', loadPosition)
def selBs(beamstop):
# Get command controller
sicsController = sics.getSicsController()
commandController = sicsController.findComponentController('/commands/beamstops/selbsn')
# Configuring command properties
timeout = 10
count = 0
sics.hset(commandController, '/bs', beamstop)
while sics.getValue('/commands/beamstops/selbsn/bs').getIntData() != beamstop:
time.sleep(0.1)
count += 0.1
if count > timeout:
raise Exception("Time out on receiving feedback on beam stop selection")
cnt = 0
while cnt < 20:
try:
commandController.syncExecute();
break
except SicsExecutionException, e:
em = str(e.getMessage())
if em.__contains__('Interrupted'):
raise e
log('retry selecting beam stop ' + str(beamstop))
time.sleep(1)
while not sicsController.getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.3)
cnt += 1
def driveSample(position):
log('Driving sample holder to position ' + str(position) + ' ...')
cur = sics.getValue('sampleNum').getFloatData()
if abs(cur - position) < 0.01:
log('sampleNum is already at ' + str(position))
return
sicsController = sics.getSicsController()
controller = sicsController.findComponentController(devices['sampleNum'])
# controller.drive(position)
cnt = 0
while cnt < 20:
try:
controller.drive(position)
break
except SicsExecutionException, e:
em = str(e.getMessage())
if em.__contains__('Interrupted'):
raise e
time.sleep(0.6)
log(str(e))
log('retry driving sampleNum')
time.sleep(1)
while not sicsController.getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.3)
cnt += 1
sics.handleInterrupt()
cur = sics.getValue('sampleNum').getFloatData()
if abs(cur - position) < 0.01:
log('sampleNum is already at ' + str(position))
return
def driveGuide(guideConfig):
# Set configuration
sics.set('/commands/optics/guide/configuration', guideConfig.key)
log('Moving guide to ' + guideConfig.key)
sicsController = SicsCore.getSicsController()
commandController = sicsController.findComponentController('/commands/optics/guide')
# Setting of configuration and starting a command are committed to SICS via different communication channels
# In order to make those in sync, we need to wait for the configuration to be settled.
time.sleep(0.1)
# Start command now
cnt = 0
while cnt < 20:
try:
commandController.syncExecute();
break
except SicsExecutionException, e:
em = str(e.getMessage())
if em.__contains__('Interrupted'):
raise e
log('retry moving guide to ' + str(guideConfig.key))
time.sleep(1)
while not sicsController.getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.3)
cnt += 1
def printQuokkaSettings():
datafile = sics.getValue('datafilename').getStringData()
if ((datafile.find('QKK') != -1) and (datafile.find('.nx.hdf') != -1)):
runNumber = (datafile.split('QKK')[1].split('.nx.hdf'))[0]
else:
runNumber = datafile
msg = '\n'
msg += "***** Quokka Instrument Settings *****\n"
msg += '\n'
msg += " Last Run Number: " + runNumber + '\n'
msg += " Sample Name: " + sics.getValue('samplename').getStringData() + '\n'
msg += '\n'
msg += " Attenuator: %.2f degree" % getAttValue() + '\n'
msg += " Entrance Aperature: %.2f" % getEntRotApValue() + '\n'
msg += "Guide Configuration: " + getGuideConfig() + '\n'
try:
msg += " Sample Position: " + str(getSamplePosition()) + '\n'
except:
msg += " Sample Position: ???\n"
# print " Beam Stop 1: " + getBsPosition(1)
# print " Beam Stop 2: " + getBsPosition(2)
# print " Beam Stop 3: " + getBsPosition(3)
# print " Beam Stop 4: " + getBsPosition(4)
# print " Beam Stop 5: " + getBsPosition(5)
msg += " Beam Stop X: %.2f" % getBsxValue() + '\n'
msg += " Beam Stop Z: %.2f" % getBszValue() + '\n'
msg += " Detector Position: %.2f" %getDetPosition() + '\n'
msg += " Detector Offset: %.2f" % getDetOffsetValue() + '\n'
msg += '\n'
msg += "****************************************\n"
log(msg)
def driveSample(position):
log('Driving sample holder to position ' + str(position) + ' ...')
cur = sics.getValue('sampleNum').getFloatData()
if abs(cur - position) < 0.01:
log('sampleNum is already at ' + str(position))
return
sicsController = sics.getSicsController()
controller = sicsController.findComponentController(devices['sampleNum'])
# controller.drive(position)
cnt = 0
while cnt < 20:
try:
controller.drive(position)
break
except SicsExecutionException, e:
em = str(e.getMessage())
if em.__contains__('Interrupted'):
raise e
time.sleep(0.6)
log(str(e))
log('retry driving sampleNum')
time.sleep(1)
while not sicsController.getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.3)
cnt += 1
sics.handleInterrupt()
cur = sics.getValue('sampleNum').getFloatData()
if abs(cur - position) < 0.01:
log('sampleNum is already at ' + str(position))
return
def run(deviceId, value):
sicsController = getSicsController()
device = sicsController.findDeviceController(deviceId)
device.setTargetValue(ComponentData.createData(value))
device.commitTargetValue(None)
handleInterrupt()
logger.log("Run " + device.getPath() + " OK")
def run(deviceId, value):
sicsController = getSicsController()
device = sicsController.findDeviceController(deviceId)
device.setTargetValue(ComponentData.createData(value))
device.commitTargetValue(None)
handleInterrupt()
logger.log("Run " + device.getPath() + " OK")
def printQuokkaSettings():
datafile = sics.getValue('datafilename').getStringData()
if ((datafile.find('QKK') != -1) and (datafile.find('.nx.hdf') != -1)):
runNumber = (datafile.split('QKK')[1].split('.nx.hdf'))[0]
else:
runNumber = datafile
msg = '\n'
msg += "***** Quokka Instrument Settings *****\n"
msg += '\n'
msg += " Last Run Number: " + runNumber + '\n'
msg += " Sample Name: " + sics.getValue('samplename').getStringData() + '\n'
msg += '\n'
msg += " Attenuator: %.2f degree" % getAttValue() + '\n'
msg += " Entrance Aperature: %.2f" % getEntRotApValue() + '\n'
msg += "Guide Configuration: " + getGuideConfig() + '\n'
try:
msg += " Sample Position: " + str(getSamplePosition()) + '\n'
except:
msg += " Sample Position: ???\n"
# print " Beam Stop 1: " + getBsPosition(1)
# print " Beam Stop 2: " + getBsPosition(2)
# print " Beam Stop 3: " + getBsPosition(3)
# print " Beam Stop 4: " + getBsPosition(4)
# print " Beam Stop 5: " + getBsPosition(5)
msg += " Beam Stop X: %.2f" % getBsxValue() + '\n'
msg += " Beam Stop Z: %.2f" % getBszValue() + '\n'
msg += " Detector Position: %.2f" %getDetPosition() + '\n'
msg += " Detector Offset: %.2f" % getDetOffsetValue() + '\n'
msg += '\n'
msg += "****************************************\n"
log(msg)
def slog(text, f_err = False):
global __MSW_CONTEXT__
if "__MSW_CONTEXT__" in globals():
if not f_err:
line = log(text, __MSW_CONTEXT__.getWriter())
else:
line = log(text, __MSW_CONTEXT__.getErrorWriter())
else:
if not f_err:
print text
else:
print >> sys.stderr, text
line = text
global __LOG_FILES__
if "__LOG_FILES__" in globals():
for file in __LOG_FILES__:
try:
file.write(line)
file.flush()
except Exception, e:
print >> sys.stderr, e
def count(mode, dataType, preset, force='true', saveType=saveType.save):
controllerPath = '/commands/scan/runscan'
sicsController = sics.getSicsController()
scanController = sicsController.findComponentController(controllerPath)
sics.execute('hset ' + controllerPath + '/scan_variable ' + deviceName, 'scan')
sics.execute('hset ' + controllerPath + '/scan_start 0', 'scan')
sics.execute('hset ' + controllerPath + '/scan_stop 0', 'scan')
sics.execute('hset ' + controllerPath + '/numpoints 1', 'scan')
if (scanMode.key == 'monitor'):
sics.execute('hset ' + controllerPath + '/mode MONITOR_1', 'scan')
else:
sics.execute('hset ' + controllerPath + '/mode ' + scanMode.key, 'scan')
sics.execute('hset ' + controllerPath + '/preset ' + str(preset), 'scan')
sics.execute('hset ' + controllerPath + '/datatype ' + dataType.key, 'scan')
sics.execute('hset ' + controllerPath + '/savetype ' + saveType.key, 'scan')
sics.execute('hset ' + controllerPath + '/force ' + force, 'scan')
# repeat until successful
while True:
time.sleep(1)
while not sics.getSicsController().getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.1)
scanController.syncExecute()
break
# Get output filename
filenameController = sicsController.findDeviceController('datafilename')
savedFilename = filenameController.getValue().getStringData()
log('Saved to ' + savedFilename)
return savedFilename
def bs_att(bs_num, bs_angle, att_num):
if bs_num < 3 or bs_num > 5 :
raise Exception, 'beam stop number ' + str(bs_num) + ' is not supported'
if att_num < 0 or att_num > 5 :
raise Exception, 'att position number ' + str(att_num) + ' is not supported'
cur_bs3 = bs3()
cur_bs4 = bs4()
cur_bs5 = bs5()
cur_att = att_pos()
# Check if the current configuration has all beamstops out of position and the
# empty attenuator position selected. If this is the case, put an attenuator
# in (which will engage the fast shutter while doing so).
# Should not ever happen, but best to check.
if (cur_bs3 < 63.0 or cur_bs3 > 67.0) and (cur_bs4 < 63.0 or cur_bs4 > 67.0) \
and (cur_bs5 < 63.0 or cur_bs5 > 67.0) and cur_att == 3:
log('put attenuator to 5 first')
att_pos(5)
# This is nominally the BS in position for all beamstops
# Inserts a given beamstop and then remove all others. Then moves the attenuator.
if bs_angle >= 63.0 and bs_angle <= 67.0 :
log('put bs' + str(bs_num) + ' in')
if bs_num == 3:
sics.drive('bs3', bs_angle)
sics.drive('bs4', 0)
sics.drive('bs5', 0)
elif bs_num == 4:
sics.drive('bs4', bs_angle)
sics.drive('bs3', 0)
sics.drive('bs5', 0)
elif bs_num == 5:
sics.drive('bs5', bs_angle)
sics.drive('bs3', 0)
sics.drive('bs4', 0)
log('put attenuator to ' + str(att_num))
att_pos(att_num)
# If you are driving an attenuator in, do this first, then move the beam stop
elif (bs_angle < 63.0 or bs_angle > 67.0) and att_num != 3 :
log('put attenuator to ' + str(att_num))
att_pos(att_num)
log('put bs' + str(bs_num) + ' in')
if bs_num == 3:
sics.drive('bs3', bs_angle)
sics.drive('bs4', 0)
sics.drive('bs5', 0)
elif bs_num == 4:
sics.drive('bs4', bs_angle)
sics.drive('bs3', 0)
sics.drive('bs5', 0)
elif bs_num == 5:
sics.drive('bs5', bs_angle)
sics.drive('bs3', 0)
sics.drive('bs4', 0)
else:
# Do not let the BS_Att command drive to an unsafe configuration
raise Exception, 'No valid beamstop or attenuator has been selected no movement of beamstop or attempted'
def stopHistmem():
sicsController = sics.getSicsController()
histmemController = sicsController.findComponentController(
'/commands/histogram/histmem')
log('stopping histmem ...')
sics.execute('histmem stop')
time.sleep(0.5)
def driveToLoadPosition():
log('Driving sample holder to load position')
# Find soft upper limit
upperlimit = sics.getValue('/sample/sample_x/softupperlim').getFloatData()
# Use the soft lower limit as the load position
loadPosition = math.floor(upperlimit)
sics.drive('samx', loadPosition)
def selBs(beamstop):
# Get command controller
sicsController = sics.getSicsController()
commandController = sicsController.findComponentController('/commands/beamstops/selbsn')
# Configuring command properties
timeout = 10
count = 0
sics.hset(commandController, '/bs', beamstop)
while sics.getValue('/commands/beamstops/selbsn/bs').getIntData() != beamstop:
time.sleep(0.1)
count += 0.1
if count > timeout:
raise Exception("Time out on receiving feedback on beam stop selection")
cnt = 0
while cnt < 20:
try:
commandController.syncExecute();
break
except SicsExecutionException, e:
em = str(e.getMessage())
if em.__contains__('Interrupted'):
raise e
log('retry selecting beam stop ' + str(beamstop))
time.sleep(1)
while not sicsController.getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.3)
cnt += 1
def driveGuide(guideConfig):
# Set configuration
if hasattr(guideConfig, 'key'):
guideConfig = guideConfig.key
sics.set('/commands/optics/guide/configuration', guideConfig)
log('Moving guide to ' + guideConfig)
sicsController = SicsCore.getSicsController()
commandController = sicsController.findComponentController('/commands/optics/guide')
# Setting of configuration and starting a command are committed to SICS via different communication channels
# In order to make those in sync, we need to wait for the configuration to be settled.
time.sleep(0.1)
# Start command now
cnt = 0
while cnt < 20:
try:
commandController.syncExecute();
break
except SicsExecutionException, e:
em = str(e.getMessage())
if em.__contains__('Interrupted'):
raise e
log('retry moving guide to ' + str(guideConfig))
time.sleep(1)
while not sicsController.getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.3)
cnt += 1
def set(name, value):
controller = getDeviceController(name)
if (controller == None):
raise SicsError('Device / Path ' + name + ' not found')
else:
controller.setTargetValue(ComponentData.createData(value))
controller.commitTargetValue(None)
logger.log('Set ' + name + ' OK')
def startHistmem():
# sicsController = sics.getSicsController()
# histmemController = sicsController.findComponentController('/commands/histogram/histmem')
# sics.hset(histmemController, '/mode', 'unlimited')
log('starting histmem...')
sics.execute('histmem mode unlimited')
time.sleep(1.0)
sics.execute('histmem start')
def startHistmem():
# sicsController = sics.getSicsController()
# histmemController = sicsController.findComponentController('/commands/histogram/histmem')
# sics.hset(histmemController, '/mode', 'unlimited')
log('starting histmem...')
sics.execute('histmem mode unlimited')
time.sleep(1.0)
sics.execute('histmem start')
def set(name, value):
controller = getDeviceController(name)
if (controller == None):
raise SicsError('Device / Path ' + name + ' not found')
else:
controller.setTargetValue(ComponentData.createData(value))
controller.commitTargetValue(None)
logger.log('Set ' + name + ' OK')
def scan(scanMode, dataType, preset, force="true", saveType=saveType.save):
controllerPath = "/commands/scan/runscan"
sicsController = sics.getSicsController()
scanController = sicsController.findComponentController(controllerPath)
# Configuring scan properties
# sics.hset(scanController, '/scan_variable', DEVICE_SAMX)
# sics.hset(scanController, '/scan_start', getSampleHolderPosition())
# sics.hset(scanController, '/scan_stop', getSampleHolderPosition())
# sics.hset(scanController, '/numpoints', 1)
# # Hack to fix monitor selection in scan
# if (scanMode.key == 'monitor'):
# sics.hset(scanController, '/mode', 'MONITOR_1')
# else:
# sics.hset(scanController, '/mode', scanMode.key)
# sics.hset(scanController, '/preset', preset)
# sics.hset(scanController, '/datatype', dataType.key)
# sics.hset(scanController, '/savetype', saveType.key)
# sics.hset(scanController, '/force', force)
sics.execute("hset " + controllerPath + "/scan_variable dummy_motor", "scan")
sics.execute("hset " + controllerPath + "/scan_start 0", "scan")
sics.execute("hset " + controllerPath + "/scan_stop 0", "scan")
sics.execute("hset " + controllerPath + "/numpoints 1", "scan")
if scanMode.key == "monitor":
sics.execute("hset " + controllerPath + "/mode MONITOR_1", "scan")
else:
sics.execute("hset " + controllerPath + "/mode " + scanMode.key, "scan")
sics.execute("hset " + controllerPath + "/preset " + str(preset), "scan")
sics.execute("hset " + controllerPath + "/datatype " + dataType.key, "scan")
sics.execute("hset " + controllerPath + "/savetype " + saveType.key, "scan")
sics.execute("hset " + controllerPath + "/force " + force, "scan")
# repeat until successful
while True:
# Wait 1 sec to make the setting settle
time.sleep(1)
while not sics.getSicsController().getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.1)
# Synchronously run scan
if not hasTripped():
log("starting scan")
scanController.syncExecute()
if not hasTripped():
break
# successful acquisition
resetTrip()
# Get output filename
filenameController = sicsController.findDeviceController("datafilename")
savedFilename = filenameController.getValue().getStringData()
log("Saved to " + savedFilename)
return savedFilename
def scan(scanMode, dataType, preset, force='true', saveType=saveType.save):
controllerPath = '/commands/scan/runscan'
sicsController = sics.getSicsController()
scanController = sicsController.findComponentController(controllerPath)
# Configuring scan properties
# sics.hset(scanController, '/scan_variable', DEVICE_SAMX)
# sics.hset(scanController, '/scan_start', getSampleHolderPosition())
# sics.hset(scanController, '/scan_stop', getSampleHolderPosition())
sics.hset(scanController, '/numpoints', 1)
# # Hack to fix monitor selection in scan
# if (scanMode.key == 'monitor'):
# sics.hset(scanController, '/mode', 'MONITOR_1')
# else:
# sics.hset(scanController, '/mode', scanMode.key)
sics.hset(scanController, '/preset', preset)
# sics.hset(scanController, '/datatype', dataType.key)
# sics.hset(scanController, '/savetype', saveType.key)
sics.hset(scanController, '/force', force)
sics.execute('hset /instrument/dummy_motor 0', 'general')
sics.execute('hset /instrument/dummy_motor 1', 'scan')
sics.execute('hset ' + controllerPath + '/scan_variable dummy_motor',
'scan')
sics.execute('hset ' + controllerPath + '/scan_start 0', 'scan')
sics.execute('hset ' + controllerPath + '/scan_stop 0', 'scan')
sics.execute('hset ' + controllerPath + '/numpoints 1', 'scan')
if (scanMode.key == 'monitor'):
sics.execute('hset ' + controllerPath + '/mode MONITOR_1', 'scan')
else:
sics.execute('hset ' + controllerPath + '/mode ' + scanMode.key,
'scan')
sics.execute('hset ' + controllerPath + '/preset ' + str(preset), 'scan')
sics.execute('hset ' + controllerPath + '/datatype ' + dataType.key,
'scan')
sics.execute('hset ' + controllerPath + '/savetype ' + saveType.key,
'scan')
sics.execute('hset ' + controllerPath + '/force ' + force, 'scan')
sics.execute('hset /instrument/dummy_motor 2', 'general')
sics.execute('hset /instrument/dummy_motor 3', 'scan')
# Wait 1 sec to make the setting settle
time.sleep(2)
# Synchronously run scan
scanController.syncExecute()
sics.execute('hset /instrument/dummy_motor 4', 'general')
sics.execute('hset /instrument/dummy_motor 5', 'scan')
# Get output filename
filenameController = sicsController.findDeviceController('datafilename')
savedFilename = filenameController.getValue().getStringData()
log('Saved to ' + savedFilename)
return savedFilename
def scan(scanMode, dataType, preset, force='true', saveType=saveType.save):
controllerPath = '/commands/scan/runscan'
sicsController = sics.getSicsController()
scanController = sicsController.findComponentController(controllerPath)
# Configuring scan properties
# sics.hset(scanController, '/scan_variable', DEVICE_SAMX)
# sics.hset(scanController, '/scan_start', getSampleHolderPosition())
# sics.hset(scanController, '/scan_stop', getSampleHolderPosition())
# sics.hset(scanController, '/numpoints', 1)
# # Hack to fix monitor selection in scan
# if (scanMode.key == 'monitor'):
# sics.hset(scanController, '/mode', 'MONITOR_1')
# else:
# sics.hset(scanController, '/mode', scanMode.key)
# sics.hset(scanController, '/preset', preset)
# sics.hset(scanController, '/datatype', dataType.key)
# sics.hset(scanController, '/savetype', saveType.key)
# sics.hset(scanController, '/force', force)
sics.execute('hset /instrument/dummy_motor 0', 'general')
sics.execute('hset /instrument/dummy_motor 1', 'scan')
sics.execute('hset ' + controllerPath + '/datatype ' + dataType.key, 'general')
sics.execute('hset ' + controllerPath + '/savetype ' + saveType.key, 'general')
sics.execute('hset ' + controllerPath + '/force ' + force, 'general')
sics.execute('hset ' + controllerPath + '/scan_variable dummy_motor', 'scan')
sics.execute('hset ' + controllerPath + '/scan_start 0', 'scan')
sics.execute('hset ' + controllerPath + '/scan_stop 0', 'scan')
sics.execute('hset ' + controllerPath + '/numpoints 1', 'scan')
if (scanMode.key == 'monitor'):
sics.execute('hset ' + controllerPath + '/mode MONITOR_1', 'scan')
else:
sics.execute('hset ' + controllerPath + '/mode ' + scanMode.key, 'scan')
sics.execute('hset ' + controllerPath + '/preset ' + str(preset), 'scan')
sics.execute('hset ' + controllerPath + '/datatype ' + dataType.key, 'scan')
sics.execute('hset ' + controllerPath + '/savetype ' + saveType.key, 'scan')
sics.execute('hset ' + controllerPath + '/force ' + force, 'scan')
sics.execute('hset /instrument/dummy_motor 2', 'general')
sics.execute('hset /instrument/dummy_motor 3', 'scan')
# Wait 1 sec to make the setting settle
time.sleep(2)
# Synchronously run scan
scanController.syncExecute()
sics.execute('hset /instrument/dummy_motor 4', 'general')
sics.execute('hset /instrument/dummy_motor 5', 'scan')
# Get output filename
filenameController = sicsController.findDeviceController('datafilename')
savedFilename = filenameController.getValue().getStringData()
log('Saved to ' + savedFilename)
return savedFilename
def curtaind(val = None):
if not val is None :
if not _is_within_precision_('curtaind', val, .1):
dhv('DOWN')
sics.drive('curtaind', val)
dhv('UP')
else:
log('curtaind is already at ' + str(val) + ', skipped')
return sics.get_raw_value('curtaind')
def scan(scanMode, dataType, preset, force='true', saveType=saveType.save):
controllerPath = '/commands/scan/runscan'
sicsController = sics.getSicsController()
scanController = sicsController.findComponentController(controllerPath)
# Configuring scan properties
# sics.hset(scanController, '/scan_variable', DEVICE_SAMX)
# sics.hset(scanController, '/scan_start', getSampleHolderPosition())
# sics.hset(scanController, '/scan_stop', getSampleHolderPosition())
# sics.hset(scanController, '/numpoints', 1)
# # Hack to fix monitor selection in scan
# if (scanMode.key == 'monitor'):
# sics.hset(scanController, '/mode', 'MONITOR_1')
# else:
# sics.hset(scanController, '/mode', scanMode.key)
# sics.hset(scanController, '/preset', preset)
# sics.hset(scanController, '/datatype', dataType.key)
# sics.hset(scanController, '/savetype', saveType.key)
# sics.hset(scanController, '/force', force)
sics.execute('hset ' + controllerPath + '/scan_variable dummy_motor', 'scan')
sics.execute('hset ' + controllerPath + '/scan_start 0', 'scan')
sics.execute('hset ' + controllerPath + '/scan_stop 0', 'scan')
sics.execute('hset ' + controllerPath + '/numpoints 1', 'scan')
if (scanMode.key == 'monitor'):
sics.execute('hset ' + controllerPath + '/mode MONITOR_1', 'scan')
else:
sics.execute('hset ' + controllerPath + '/mode ' + scanMode.key, 'scan')
sics.execute('hset ' + controllerPath + '/preset ' + str(preset), 'scan')
sics.execute('hset ' + controllerPath + '/datatype ' + dataType.key, 'scan')
sics.execute('hset ' + controllerPath + '/savetype ' + saveType.key, 'scan')
sics.execute('hset ' + controllerPath + '/force ' + force, 'scan')
# repeat until successful
while True:
# Wait 1 sec to make the setting settle
time.sleep(1)
while not sics.getSicsController().getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.1)
# Synchronously run scan
if not hasTripped():
log("starting scan")
scanController.syncExecute()
if not hasTripped():
break; # successful acquisition
resetTrip()
# Get output filename
filenameController = sicsController.findDeviceController('datafilename')
savedFilename = filenameController.getValue().getStringData()
log('Saved to ' + savedFilename)
return savedFilename
def curtaind(val=None):
if not val is None:
if not _is_within_precision_('curtaind', val, .1):
dhv('DOWN')
sics.drive('curtaind', val)
dhv('UP')
else:
log('curtaind is already at ' + str(val) + ', skipped')
return sics.get_raw_value('curtaind')
def driveAtt(value):
""" Do something very hard
"""
while not sics.getSicsController().getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.2)
log("Driving attenuator to " + str(value) + " degree ...")
time.sleep(0.2)
sics.drive("att", value)
log("Attenuator is now at " + str(getAttValue()) + " degree")
def driveAtt(value):
""" Do something very hard
"""
while not sics.getSicsController().getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.2)
log('Driving attenuator to ' + str(value) + ' degree ...')
time.sleep(0.2)
sics.drive('att', value)
log('Attenuator is now at ' + str(getAttValue()) + ' degree')
def driveHistmem(hmMode, preset):
sicsController = sics.getSicsController()
histmemController = sicsController.findComponentController('/commands/histogram/histmem')
sics.hset(histmemController, '/mode', hmMode.key)
sics.hset(histmemController, '/preset', preset)
sics.hset(histmemController, '/cmd', 'start')
log('Start histmem ...')
histmemController.syncExecute()
time.sleep(0.8)
log('Histmem stopped')
def driveAtt(value):
""" Do something very hard
"""
while not sics.getSicsController().getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.2)
log('Driving attenuator to ' + str(value) + ' degree ...')
time.sleep(0.2)
sics.drive('att', value)
log('Attenuator is now at ' + str(getAttValue()) + ' degree')
def driveHistmem(hmMode, preset):
sicsController = sics.getSicsController()
histmemController = sicsController.findComponentController(
'/commands/histogram/histmem')
sics.hset(histmemController, '/mode', hmMode.key)
sics.hset(histmemController, '/preset', preset)
sics.hset(histmemController, '/cmd', 'start')
log('Start histmem ...')
histmemController.syncExecute()
time.sleep(0.8)
log('Histmem stopped')
def runscan(type, scan_variable, scan_start, scan_increment, NP, mode, preset,
channel):
# Initialisation
clearInterrupt()
sicsController = getSicsController()
scanController = sicsController.findComponentController('/commands/scan/' +
type)
hset(scanController, '/scan_variable', scan_variable)
hset(scanController, '/scan_start', scan_start)
hset(scanController, '/scan_increment', scan_increment)
hset(scanController, '/NP', NP)
hset(scanController, '/mode', mode)
hset(scanController, '/preset', preset)
hset(scanController, '/channel', channel)
# Monitor status
while (scanController.getCommandStatus().equals(CommandStatus.BUSY)):
# Don't do anything before scan is ready
time.sleep(0.1)
# Run scan
logger.log('Scan started')
scanController.asyncExecute()
# Monitor initial status change
timeOut = False
counter = 0
while (scanController.getStatusDirtyFlag() == False):
time.sleep(0.1)
counter += 0.1
if (counter >= 1):
timeOut = True
logger.log('Time out on running scan')
break
# Enter into normal sequence
if (timeOut == False):
scanpoint = -1
scanPointController = sicsController.findComponentController(
scanController, '/feedback/scanpoint')
countsController = sicsController.findComponentController(
scanController, '/feedback/counts')
logger.log(' NP ' + '\t' + ' Counts')
while (scanController.getCommandStatus().equals(CommandStatus.BUSY)):
currentPoint = scanPointController.getValue().getIntData()
if ((scanpoint == -1 and currentPoint == 0)
or (scanpoint != -1 and currentPoint != scanpoint)):
scanpoint = currentPoint
logger.log(
'%4d \t %d' %
(scanpoint, countsController.getValue().getIntData()))
time.sleep(0.1)
logger.log('Scan completed')
handleInterrupt()
def driveToLoadPosition():
log("Driving sample holder to load position")
# Find soft upper limit
upperlimit = sics.getValue("/sample/sample_x/softupperlim").getFloatData()
hardlimit = sics.getValue("/sample/sample_x/hardupperlim").getFloatData()
softzero = sics.getValue("/sample/sample_x/softzero").getFloatData()
if upperlimit > hardlimit - softzero:
upperlimit = hardlimit - softzero
# Use the soft lower limit as the load position
loadPosition = math.floor(upperlimit)
sics.drive("samx", loadPosition)
def driveHistmem(hmMode, preset):
controllerPath = "/commands/histogram/histmem"
sicsController = sics.getSicsController()
histmemController = sicsController.findComponentController(controllerPath)
sics.execute("hset " + controllerPath + "/mode " + hmMode.key, "scan")
sics.execute("hset " + controllerPath + "/preset " + str(preset), "scan")
sics.execute("hset " + controllerPath + "/cmd start", "scan")
log("Start histmem ...")
time.sleep(0.5)
histmemController.syncExecute()
time.sleep(0.8)
log("Histmem stopped")
def driveHistmem(hmMode, preset):
controllerPath = '/commands/histogram/histmem'
sicsController = sics.getSicsController()
histmemController = sicsController.findComponentController(controllerPath)
sics.execute('hset ' + controllerPath + '/mode ' + hmMode.key, 'scan')
sics.execute('hset ' + controllerPath + '/preset ' + str(preset), 'scan')
sics.execute('hset ' + controllerPath + '/cmd start', 'scan')
log('Start histmem ...')
time.sleep(0.5)
histmemController.syncExecute()
time.sleep(0.8)
log('Histmem stopped')
def driveHistmem(hmMode, preset):
controllerPath = '/commands/histogram/histmem'
sicsController = sics.getSicsController()
histmemController = sicsController.findComponentController(controllerPath)
sics.execute('hset ' + controllerPath + '/mode ' + hmMode.key, 'scan')
sics.execute('hset ' + controllerPath + '/preset ' + str(preset), 'scan')
sics.execute('hset ' + controllerPath + '/cmd start', 'scan')
log('Start histmem ...')
time.sleep(0.5)
histmemController.syncExecute()
time.sleep(0.8)
log('Histmem stopped')
def driveGuide(guideConfig):
# Set configuration
sics.set('/commands/optics/guide/configuration', guideConfig.key)
log('Moving guide to ' + guideConfig.key)
sicsController = SicsCore.getSicsController()
commandController = sicsController.findComponentController('/commands/optics/guide')
# Setting of configuration and starting a command are committed to SICS via different communication channels
# In order to make those in sync, we need to wait for the configuration to be settled.
time.sleep(0.1)
# Start command now
commandController.syncExecute();
log('Guide is moved to ' + getGuideConfig())
def get_raw_feedback(comm):
global __time_out__
__count__ = 0
comm_str = str(comm)
while __count__ < __time_out__:
try:
item = run_command(comm_str, True)
return str(item)
except:
__count__ += 0.2
time.sleep(0.2)
logger.log('time out in running ' + comm_str)
return None
def get_raw_feedback(comm):
global __time_out__
__count__ = 0
comm_str = str(comm)
while __count__ < __time_out__:
try:
item = run_command(comm_str, True)
return str(item)
except:
__count__ += 0.2
time.sleep(0.2)
logger.log('time out in running ' + comm_str)
return None
def run_command_timeout(cmd, use_full_feedback=False, timeout=None):
logger.log('using timeout command')
call_back = __SICS_Callback__(use_full_feedback)
SicsCore.getDefaultProxy().send(cmd, call_back)
acc_time = 0
while call_back.__status__ is None and (timeout is None
or acc_time < timeout):
# while call_back.__status__ is None:
time.sleep(0.2)
acc_time += 0.2
if call_back.__status__ is None:
raise Exception, 'time out in running the command'
return call_back.__status__
def driveGuide(guideConfig):
# Set configuration
sics.set('/commands/optics/guide/configuration', guideConfig.key)
log('Moving guide to ' + guideConfig.key)
sicsController = SicsCore.getSicsController()
commandController = sicsController.findComponentController(
'/commands/optics/guide')
# Setting of configuration and starting a command are committed to SICS via different communication channels
# In order to make those in sync, we need to wait for the configuration to be settled.
time.sleep(0.1)
# Start command now
commandController.syncExecute()
log('Guide is moved to ' + getGuideConfig())
def check_nvs_lambda(self, val):
timeout = 600
interval = 2
count = 0
while count < timeout :
try:
cur = sics.get_raw_value('nvs_lambda')
if sics.isInterrupt():
break
# pre = sics.get_raw_value('nvs_lambda precision')
pre = 0.1
if abs(cur - val) < pre:
log('wavelength is ' + str(cur))
return True
else:
try:
time.sleep(interval)
count += interval
except KeyboardInterrupt as ei:
log('Interrupted')
raise Exception, 'interrupted'
break;
except:
try:
time.sleep(interval)
count += interval
except KeyboardInterrupt as ei:
log('Interrupted')
raise Exception, 'interrupted'
break;
if sics.isInterrupt():
sics.clearInterrupt()
raise Exception, 'interrupted'
sics.execute('stopexe nvs_lambda')
log('WARNING: timeout in driving nvs_lambda, but choose to continue.')
def setSafeAttenuation(startingAttenuation=330):
local_rate = 0
global_rate = 0
previousLocalRate = 0
previousGlobalRate = 0
startLevel = attenuationLevels.index(startingAttenuation)
# Hack: need to reset and run histmem
log('set safe attenuation...')
# loop from the safe range of attenuation
for level in xrange(startLevel, len(attenuationLevels)):
# drive the attenuator
driveAtt(attenuationLevels[level])
# count bin rate
local_rate, global_rate = determineAveragedRates(max_samples=5,
log_success=False)
log('local rate = ' + str(local_rate))
log('global rate = ' + str(global_rate))
# Too much (check both local and global rate)
if ((local_rate > local_rateSafe) or (global_rate > global_rateSafe)):
if (level > 0):
# [GUMTREE-378] Ensure SICS is ready after count
while not sics.getSicsController().getServerStatus().equals(
ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.1)
# Brings it back to one step
driveAtt(attenuationLevels[level - 1])
local_rate = previousLocalRate
global_rate = previousGlobalRate
break
# Within tolerance
elif (local_rate >= local_rateSafe / 2) or (global_rate >=
global_rateSafe / 2):
log('exit loop')
break
previousLocalRate = local_rate
previousGlobalRate = global_rate
# Ensure SICS is ready after count
while not sics.getSicsController().getServerStatus().equals(
ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.1)
# Print info at the end
log('Attenuation is set to ' + str(getAttValue()) +
' degree with bin rate ' + str(local_rate))
def scan10(sample_position, collect_time, sample_name = None):
global __sampleMap__, __sampleNum__
if sample_position < 1 or sample_position > 10:
raise Exception, 'Invalid sample position, scan not run. Choose a position between 1 and 10 inclusive.'
else:
if not sample_name is None:
sics.execute('samplename ' + str(sample_name), 'scan')
cur_samx = __sampleMap__[__sampleNum__][sample_position]
# cur_samx = samx()
time.sleep(1)
log("Collection time set to " + str(collect_time) + " seconds")
# sics.execute('histmem mode time')
# sics.execute('histmem preset ' + str(collect_time))
# time.sleep(1)
log("Data collection for sample " + sample_name + " started")
# sics.execute("histmem start")
# sicsController = sics.getSicsController()
# while not sicsController.getServerStatus().equals(ServerStatus.COUNTING):
# time.sleep(0.3)
# while not sicsController.getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
# time.sleep(0.3)
# time.sleep(1)
# sics.execute('newfile HISTOGRAM_XYT')
# time.sleep(1)
# log("Saving data")
# sics.execute('save')
scan('samx', cur_samx, cur_samx, 1, scanMode.time, dataType.HISTOGRAM_XYT, collect_time)
time.sleep(2)
log(sics.get_base_filename() + ' updated')
log("Scan completed")
if not sample_name is None:
sics.execute('samplename {}', 'scan')
def scan10(sample_position, collect_time, sample_name=None):
global __sampleMap__, __sampleNum__
if sample_position < 1 or sample_position > 10:
raise Exception, 'Invalid sample position, scan not run. Choose a position between 1 and 10 inclusive.'
else:
if not sample_name is None:
sics.execute('samplename ' + str(sample_name), 'scan')
cur_samx = __sampleMap__[__sampleNum__][sample_position]
# cur_samx = samx()
time.sleep(1)
log("Collection time set to " + str(collect_time) + " seconds")
# sics.execute('histmem mode time')
# sics.execute('histmem preset ' + str(collect_time))
# time.sleep(1)
log("Data collection for sample " + sample_name + " started")
# sics.execute("histmem start")
# sicsController = sics.getSicsController()
# while not sicsController.getServerStatus().equals(ServerStatus.COUNTING):
# time.sleep(0.3)
# while not sicsController.getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
# time.sleep(0.3)
# time.sleep(1)
# sics.execute('newfile HISTOGRAM_XYT')
# time.sleep(1)
# log("Saving data")
# sics.execute('save')
scan('samx', cur_samx, cur_samx, 1, scanMode.time,
dataType.HISTOGRAM_XYT, collect_time)
time.sleep(2)
log(sics.get_base_filename() + ' updated')
log("Scan completed")
if not sample_name is None:
sics.execute('samplename {}', 'scan')
def resetTrip():
#print >> sys.stderr, '!!! detector tripped !!!'
log('!!! detector tripped !!!')
# drive to higher attenuation
if getAttValue() < 330:
log('adjusting attenuation')
driveAtt(getAttValue() + 30)
# reset fast shutter
# raise Exception('detector tripped - reset not supported')
sics.execute('hset ' + reset_trip + ' 1')
time.sleep(20)
def test_logger(self):
# Setup writer
stringWriter = StringWriter()
pyFileWriter = PyFileWriter(stringWriter)
oldWriter = sys.stdout
sys.stdout = pyFileWriter
# Run
logger.log('123')
output = stringWriter.toString()
sys.stdout = oldWriter
# Assert
self.assertTrue(output.index('123') > 0)
def resetTrip():
#print >> sys.stderr, '!!! detector tripped !!!'
log('!!! detector tripped !!!')
# drive to higher attenuation
if getAttValue() < 330:
log('adjusting attenuation')
driveAtt(getAttValue() + 30)
# reset fast shutter
# raise Exception('detector tripped - reset not supported')
sics.execute('hset ' + reset_trip + ' 1')
time.sleep(20)
def scan(deviceName,
start,
stop,
numpoints,
scanMode,
dataType,
preset,
force='true',
saveType=saveType.save):
controllerPath = '/commands/scan/runscan'
sicsController = sics.getSicsController()
scanController = sicsController.findComponentController(controllerPath)
sics.execute('hset ' + controllerPath + '/scan_variable ' + deviceName,
'scan')
sics.execute('hset ' + controllerPath + '/scan_start ' + str(start),
'scan')
sics.execute('hset ' + controllerPath + '/scan_stop ' + str(stop), 'scan')
sics.execute('hset ' + controllerPath + '/numpoints ' + str(numpoints),
'scan')
if (scanMode.key == 'monitor'):
sics.execute('hset ' + controllerPath + '/mode MONITOR_1', 'scan')
else:
sics.execute('hset ' + controllerPath + '/mode ' + scanMode.key,
'scan')
sics.execute('hset ' + controllerPath + '/preset ' + str(preset), 'scan')
sics.execute('hset ' + controllerPath + '/datatype ' + dataType.key,
'scan')
sics.execute('hset ' + controllerPath + '/savetype ' + saveType.key,
'scan')
sics.execute('hset ' + controllerPath + '/force ' + force, 'scan')
# repeat until successful
while True:
time.sleep(1)
while not sics.getSicsController().getServerStatus().equals(
ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.1)
scanController.syncExecute()
break
# Get output filename
filenameController = sicsController.findDeviceController('datafilename')
savedFilename = filenameController.getValue().getStringData()
log('Saved to ' + savedFilename)
return savedFilename
def driveBs(ids, action):
# Wrap input as list
if type(ids) != type([]):
ids = [ids]
# Loop thru each beam stop
for id in ids:
if action.key == 'up':
log('Driving bs' + str(id) + ' up ...')
bsList[id - 1].up()
log('bs' + str(id) + ' is now in ' + getBsPosition(id))
elif action.key == 'down':
log('Driving bs' + str(id) + ' down ...')
bsList[id - 1].down()
log('bs' + str(id) + ' is now in ' + getBsPosition(id))
else:
log('Cannot driving bs' + str(id) + ' to ' + str(action))
def __setattr__(self, name, value):
if name == 'att' and value != 330 and not value is None:
log('att can not be changed; use 330 instead')
return
if name == 'bs' and not value is None:
if value < 1 or value > 6:
self.clear()
raise Exception, 'beamstop selection must be an integer from 1 to 6'
if name == 'guide':
if hasattr(value, 'key'):
value = value.key
if not ConfigSystem._property_list.__contains__(name):
raise Exception, 'property not allowed: ' + str(name)
self.__dict__[name] = value
if name != '__is_dirty__' and value != None:
self.__dict__['__is_dirty__'] = True
def driveBs(ids, action):
# Wrap input as list
if type(ids) != type([]):
ids = [ids]
# Loop thru each beam stop
for id in ids:
if action.key == "up":
log("Driving bs" + str(id) + " up ...")
bsList[id - 1].up()
log("bs" + str(id) + " is now in " + getBsPosition(id))
elif action.key == "down":
log("Driving bs" + str(id) + " down ...")
bsList[id - 1].down()
log("bs" + str(id) + " is now in " + getBsPosition(id))
else:
log("Cannot driving bs" + str(id) + " to " + str(action))
def driveBs(ids, action):
# Wrap input as list
if type(ids) != type([]):
ids = [ids]
# Loop thru each beam stop
for id in ids:
if action.key == 'up':
log('Driving bs' + str(id) + ' up ...')
bsList[id - 1].up()
log('bs' + str(id) + ' is now in ' + getBsPosition(id))
elif action.key == 'down':
log('Driving bs' + str(id) + ' down ...')
bsList[id - 1].down()
log('bs' + str(id) + ' is now in ' + getBsPosition(id))
else:
log('Cannot driving bs' + str(id) + ' to ' + str(action))
def driveSafeAttenuation(override=False, startingAttenuation=330):
if override:
# Use traditional method
setSafeAttenuation(startingAttenuation)
else:
# Find safe attenuation value
att = findSafeAttenuation(startingAttenuation)
if att is not None:
while not sics.getSicsController().getServerStatus().equals(ServerStatus.EAGER_TO_EXECUTE):
time.sleep(0.1)
driveAtt(att)
time.sleep(3)
while hasTripped():
resetTrip()
local_rate, global_rate = determineAveragedRates(max_samples=3, log_success=False)
log('local rate = ' + str(local_rate))
log('global rate = ' + str(global_rate))