def _setup_peak_center(self, detectors, isotope, period,
center_dac, directions, plot_panel, new,
standalone_graph, name):
spec = self.spectrometer
ref = detectors[0]
self.reference_detector = ref
self.reference_isotope = isotope
if len(detectors) > 1:
ad = detectors[1:]
else:
ad = []
pc = self.peak_center
if not pc or new:
pc = PeakCenter()
pc.trait_set(center_dac=center_dac,
period=period,
directions=directions,
reference_detector=ref,
additional_detectors=ad,
reference_isotope=isotope,
spectrometer=spec)
self.peak_center = pc
graph = pc.graph
graph.name = name
if plot_panel:
plot_panel.set_peak_center_graph(graph)
else:
graph.close_func = self.close
if standalone_graph:
# bind to the graphs close_func
# self.close is called when graph window is closed
# use so we can stop the timer
# set graph window attributes
graph.window_title = 'Peak Center {}({}) @ {:0.3f}'.format(ref, isotope, center_dac)
graph.window_width = 300
graph.window_height = 250
self.open_view(graph)
def _setup_peak_center(self, detectors, isotope, period, center_dac,
directions, plot_panel):
spec = self.spectrometer
ref = detectors[0]
self.reference_detector = ref
self.reference_isotope = isotope
if len(detectors) > 1:
ad = detectors[1:]
else:
ad = []
pc = self.peak_center
if not pc:
pc = PeakCenter()
pc.trait_set(center_dac=center_dac,
period=period,
directions=directions,
reference_detector=ref,
additional_detectors=ad,
reference_isotope=isotope,
spectrometer=spec)
self.peak_center = pc
graph = pc.graph
if plot_panel:
# plot_panel.peak_center_graph = graph
plot_panel.set_peak_center_graph(graph)
else:
# bind to the graphs close_func
# self.close is called when graph window is closed
# use so we can stop the timer
graph.close_func = self.close
# set graph window attributes
graph.window_title = 'Peak Center {}({}) @ {:0.3f}'.format(
ref, isotope, center_dac)
graph.window_width = 300
graph.window_height = 250
self.open_view(graph)
def setup_peak_center(self, detector=None, isotope=None,
integration_time=1.04,
directions='Increase',
center_dac=None, plot_panel=None, new=False,
standalone_graph=True, name='', show_label=False,
window=0.015, step_width=0.0005, min_peak_height=1.0, percent=80,
deconvolve=None,
use_interpolation=False,
interpolation_kind='linear',
dac_offset=None, calculate_all_peaks=False,
config_name=None,
use_configuration_dac=True):
if deconvolve is None:
n_peaks, select_peak = 1, 1
if dac_offset is not None:
use_dac_offset = True
spec = self.spectrometer
spec.save_integration()
self.debug('setup peak center. detector={}, isotope={}'.format(detector, isotope))
self._setup_config()
pcc = None
if detector is None or isotope is None:
self.debug('ask user for peak center configuration')
self.peak_center_config.load(dac=spec.magnet.dac)
if config_name:
self.peak_center_config.active_name = config_name
info = self.peak_center_config.edit_traits()
if not info.result:
return
else:
pcc = self.peak_center_config.active_item
elif config_name:
self.peak_center_config.load(dac=spec.magnet.dac)
self.peak_center_config.active_name = config_name
pcc = self.peak_center_config.active_item
if pcc:
if not detector:
detector = pcc.active_detectors
if not isotope:
isotope = pcc.isotope
directions = pcc.directions
integration_time = pcc.integration_time
window = pcc.window
min_peak_height = pcc.min_peak_height
step_width = pcc.step_width
percent = pcc.percent
use_interpolation = pcc.use_interpolation
interpolation_kind = pcc.interpolation_kind
n_peaks = pcc.n_peaks
select_peak = pcc.select_n_peak
use_dac_offset = pcc.use_dac_offset
dac_offset = pcc.dac_offset
calculate_all_peaks = pcc.calculate_all_peaks
if center_dac is None and use_configuration_dac:
center_dac = pcc.dac
spec.set_integration_time(integration_time)
period = int(integration_time * 1000 * 0.9)
if not isinstance(detector, (tuple, list)):
detector = (detector,)
ref = detector[0]
ref = self.spectrometer.get_detector(ref)
self.reference_detector = ref
self.reference_isotope = isotope
if center_dac is None:
center_dac = self.get_center_dac(ref, isotope)
if len(detector) > 1:
ad = detector[1:]
else:
ad = []
pc = self.peak_center
if not pc or new:
pc = PeakCenter()
pc.trait_set(center_dac=center_dac,
period=period,
window=window,
percent=percent,
min_peak_height=min_peak_height,
step_width=step_width,
directions=directions,
reference_detector=ref,
additional_detectors=ad,
reference_isotope=isotope,
spectrometer=spec,
show_label=show_label,
use_interpolation=use_interpolation,
interpolation_kind=interpolation_kind,
n_peaks=n_peaks,
select_peak=select_peak,
use_dac_offset=use_dac_offset,
dac_offset=dac_offset,
calculate_all_peaks=calculate_all_peaks)
self.peak_center = pc
graph = pc.graph
graph.name = name
if plot_panel:
plot_panel.set_peak_center_graph(graph)
else:
graph.close_func = self.close
if standalone_graph:
# set graph window attributes
graph.window_title = 'Peak Center {}({}) @ {:0.3f}'.format(ref, isotope, center_dac)
graph.window_width = 300
graph.window_height = 250
open_view(graph)
return self.peak_center
def setup_peak_center(self,
detector=None,
isotope=None,
integration_time=1.04,
directions='Increase',
center_dac=None,
plot_panel=None,
new=False,
standalone_graph=True,
name='',
show_label=False,
window=0.015,
step_width=0.0005,
min_peak_height=1.0,
percent=80,
deconvolve=None,
use_interpolation=False,
interpolation_kind='linear',
dac_offset=None,
calculate_all_peaks=False,
config_name=None,
use_configuration_dac=True):
if deconvolve is None:
n_peaks, select_peak = 1, 1
if dac_offset is not None:
use_dac_offset = True
spec = self.spectrometer
spec.save_integration()
self.debug('setup peak center. detector={}, isotope={}'.format(
detector, isotope))
self._setup_config()
pcc = None
if detector is None or isotope is None:
self.debug('ask user for peak center configuration')
self.peak_center_config.load(dac=spec.magnet.dac)
if config_name:
self.peak_center_config.active_name = config_name
info = self.peak_center_config.edit_traits()
if not info.result:
return
else:
pcc = self.peak_center_config.active_item
elif config_name:
self.peak_center_config.load(dac=spec.magnet.dac)
self.peak_center_config.active_name = config_name
pcc = self.peak_center_config.active_item
if pcc:
if not detector:
detector = pcc.active_detectors
if not isotope:
isotope = pcc.isotope
directions = pcc.directions
integration_time = pcc.integration_time
window = pcc.window
min_peak_height = pcc.min_peak_height
step_width = pcc.step_width
percent = pcc.percent
use_interpolation = pcc.use_interpolation
interpolation_kind = pcc.interpolation_kind
n_peaks = pcc.n_peaks
select_peak = pcc.select_n_peak
use_dac_offset = pcc.use_dac_offset
dac_offset = pcc.dac_offset
calculate_all_peaks = pcc.calculate_all_peaks
if center_dac is None and use_configuration_dac:
center_dac = pcc.dac
spec.set_integration_time(integration_time)
period = int(integration_time * 1000 * 0.9)
if not isinstance(detector, (tuple, list)):
detector = (detector, )
ref = detector[0]
ref = self.spectrometer.get_detector(ref)
self.reference_detector = ref
self.reference_isotope = isotope
if center_dac is None:
center_dac = self.get_center_dac(ref, isotope)
if len(detector) > 1:
ad = detector[1:]
else:
ad = []
pc = self.peak_center
if not pc or new:
pc = PeakCenter()
pc.trait_set(center_dac=center_dac,
period=period,
window=window,
percent=percent,
min_peak_height=min_peak_height,
step_width=step_width,
directions=directions,
reference_detector=ref,
additional_detectors=ad,
reference_isotope=isotope,
spectrometer=spec,
show_label=show_label,
use_interpolation=use_interpolation,
interpolation_kind=interpolation_kind,
n_peaks=n_peaks,
select_peak=select_peak,
use_dac_offset=use_dac_offset,
dac_offset=dac_offset,
calculate_all_peaks=calculate_all_peaks)
self.peak_center = pc
graph = pc.graph
graph.name = name
if plot_panel:
plot_panel.set_peak_center_graph(graph)
else:
graph.close_func = self.close
if standalone_graph:
# set graph window attributes
graph.window_title = 'Peak Center {}({}) @ {:0.3f}'.format(
ref, isotope, center_dac)
graph.window_width = 300
graph.window_height = 250
open_view(graph)
return self.peak_center
def setup_peak_center(self, detector=None, isotope=None,
integration_time=1.04,
directions='Increase',
center_dac=None, plot_panel=None, new=False,
standalone_graph=True, name='', show_label=False,
window=0.015, step_width=0.0005, min_peak_height=1.0, percent=80):
spec = self.spectrometer
spec.save_integration()
self.debug('setup peak center. detector={}, isotope={}'.format(detector, isotope))
if detector is None or isotope is None:
self.debug('ask user for peak center configuration')
pcc = self.peak_center_config
pcc.dac = spec.magnet.dac
info = pcc.edit_traits()
if not info.result:
return
else:
detector = pcc.detector.name
isotope = pcc.isotope
directions = pcc.directions
integration_time = pcc.integration_time
window = pcc.window
min_peak_height = pcc.min_peak_height
step_width = pcc.step_width
percent = pcc.percent
# if not pcc.use_current_dac:
center_dac = pcc.dac
spec.set_integration_time(integration_time)
period = int(integration_time * 1000 * 0.9)
if isinstance(detector, (tuple, list)):
ref = detector[0]
detectors = detector
else:
ref = detector
detectors = (ref,)
if center_dac is None:
center_dac = self.get_center_dac(ref, isotope)
ref = detectors[0]
self.reference_detector = ref
self.reference_isotope = isotope
if len(detectors) > 1:
ad = detectors[1:]
else:
ad = []
pc = self.peak_center
if not pc or new:
pc = PeakCenter()
pc.trait_set(center_dac=center_dac,
period=period,
window=window,
percent=percent,
min_peak_height=min_peak_height,
step_width=step_width,
directions=directions,
reference_detector=ref,
additional_detectors=ad,
reference_isotope=isotope,
spectrometer=spec,
show_label=show_label)
self.peak_center = pc
graph = pc.graph
graph.name = name
if plot_panel:
plot_panel.set_peak_center_graph(graph)
else:
graph.close_func = self.close
if standalone_graph:
# set graph window attributes
graph.window_title = 'Peak Center {}({}) @ {:0.3f}'.format(ref, isotope, center_dac)
graph.window_width = 300
graph.window_height = 250
self.open_view(graph)
return self.peak_center