def open_acquisition_dialog(self):
main_data = self._tab_data_model.main
secom_live_tab = main_data.getTabByName("secom_live")
# Indicate we are acquiring, especially important for the SEM which
# need to get the external signal to not scan (cf MicroscopeController)
main_data.is_acquiring.value = True
# save the original settings
settingsbar_controller = secom_live_tab.settingsbar_controller
orig_entries = get_global_settings_entries(settingsbar_controller)
for sc in secom_live_tab.streambar_controller.stream_controllers:
orig_entries += get_local_settings_entries(sc)
orig_settings = preset_as_is(orig_entries)
settingsbar_controller.pause()
settingsbar_controller.enable(False)
# pause all the live acquisitions
streambar_controller = secom_live_tab.streambar_controller
streambar_controller.pauseStreams()
streambar_controller.pause()
if self._tab_data_model.tool.value == TOOL_SPOT:
self._tab_data_model.tool.value = TOOL_NONE
streambar_controller.enable(False)
# create the dialog
try:
acq_dialog = AcquisitionDialog(self._tab_panel.Parent,
self._tab_data_model)
parent_size = [v * 0.77 for v in self._tab_panel.Parent.GetSize()]
acq_dialog.SetSize(parent_size)
acq_dialog.Center()
action = acq_dialog.ShowModal()
except Exception:
logging.exception("Failed to create acquisition dialog")
raise
finally:
acqmng.apply_preset(orig_settings)
settingsbar_controller.enable(True)
settingsbar_controller.resume()
streambar_controller.enable(True)
streambar_controller.resume()
main_data.is_acquiring.value = False
acq_dialog.Destroy()
if action == wx.ID_OPEN:
tab = main_data.getTabByName('analysis')
main_data.tab.value = tab
tab.load_data(acq_dialog.last_saved_file)
def open_acquisition_dialog(self):
main_data = self._tab_data_model.main
secom_live_tab = main_data.getTabByName("secom_live")
# Indicate we are acquiring, especially important for the SEM which
# need to get the external signal to not scan (cf MicroscopeController)
main_data.is_acquiring.value = True
# save the original settings
settingsbar_controller = secom_live_tab.settingsbar_controller
orig_entries = get_global_settings_entries(settingsbar_controller)
for sc in secom_live_tab.streambar_controller.stream_controllers:
orig_entries += get_local_settings_entries(sc)
orig_settings = preset_as_is(orig_entries)
settingsbar_controller.pause()
settingsbar_controller.enable(False)
# pause all the live acquisitions
streambar_controller = secom_live_tab.streambar_controller
streambar_controller.pauseStreams()
streambar_controller.pause()
if self._tab_data_model.tool.value == TOOL_SPOT:
self._tab_data_model.tool.value = TOOL_NONE
streambar_controller.enable(False)
# create the dialog
try:
acq_dialog = AcquisitionDialog(self._tab_panel.Parent, self._tab_data_model)
parent_size = [v * 0.77 for v in self._tab_panel.Parent.GetSize()]
acq_dialog.SetSize(parent_size)
acq_dialog.Center()
action = acq_dialog.ShowModal()
except Exception:
logging.exception("Failed to create acquisition dialog")
raise
finally:
acqmng.apply_preset(orig_settings)
settingsbar_controller.enable(True)
settingsbar_controller.resume()
streambar_controller.enable(True)
streambar_controller.resume()
main_data.is_acquiring.value = False
acq_dialog.Destroy()
if action == wx.ID_OPEN:
tab = main_data.getTabByName('analysis')
main_data.tab.value = tab
tab.load_data(acq_dialog.last_saved_file)
def open_acquisition_dialog(self):
secom_live_tab = self._tab_data_model.main.getTabByName("secom_live")
# Indicate we are acquiring, especially important for the SEM which
# need to get the external signal to not scan (cf MicroscopeController)
self._tab_data_model.main.is_acquiring.value = True
# save the original settings
settingsbar_controller = secom_live_tab.settingsbar_controller
orig_entries = get_global_settings_entries(settingsbar_controller)
for sc in secom_live_tab.streambar_controller.stream_controllers:
orig_entries += get_local_settings_entries(sc)
orig_settings = preset_as_is(orig_entries)
settingsbar_controller.pause()
settingsbar_controller.enable(False)
# pause all the live acquisitions
streambar_controller = secom_live_tab.streambar_controller
paused_streams = streambar_controller.pauseStreams()
streambar_controller.pause()
streambar_controller.enable(False)
# create the dialog
try:
acq_dialog = AcquisitionDialog(self._tab_panel.Parent, self._tab_data_model)
parent_size = [v * 0.77 for v in self._tab_panel.Parent.GetSize()]
acq_dialog.SetSize(parent_size)
acq_dialog.Center()
action = acq_dialog.ShowModal()
finally:
streambar_controller.resumeStreams(paused_streams)
acqmng.apply_preset(orig_settings)
settingsbar_controller.enable(True)
settingsbar_controller.resume()
streambar_controller.enable(True)
streambar_controller.resume()
self._tab_data_model.main.is_acquiring.value = False
if action == wx.ID_OPEN:
wx.GetApp().tab_controller.open_tab('analysis')
self._tab_data_model.main.tab.value.load_data(acq_dialog.last_saved_file)
def __init__(self, parent, orig_tab_data):
xrcfr_acq.__init__(self, parent)
self.conf = get_acqui_conf()
for n in presets:
self.cmb_presets.Append(n)
# TODO: record and reuse the preset used?
self.cmb_presets.Select(0)
self.filename = model.StringVA(create_filename(self.conf.last_path, self.conf.fn_ptn,
self.conf.last_extension, self.conf.fn_count))
self.filename.subscribe(self._onFilename, init=True)
# The name of the last file that got written to disk (used for auto viewing on close)
self.last_saved_file = None
# True when acquisition occurs
self.acquiring = False
# a ProgressiveFuture if the acquisition is going on
self.acq_future = None
self._acq_future_connector = None
self._main_data_model = orig_tab_data.main
# duplicate the interface, but with only one view
self._tab_data_model = self.duplicate_tab_data_model(orig_tab_data)
# Create a new settings controller for the acquisition dialog
self._settings_controller = SecomSettingsController(
self,
self._tab_data_model,
highlight_change=True # also adds a "Reset" context menu
)
orig_view = orig_tab_data.focussedView.value
self._view = self._tab_data_model.focussedView.value
self._hidden_view = StreamView("Plugin View Hidden")
self.streambar_controller = StreamBarController(self._tab_data_model,
self.pnl_secom_streams,
static=True,
ignore_view=True)
# The streams currently displayed are the one visible
self.add_all_streams()
# The list of streams ready for acquisition (just used as a cache)
self._acq_streams = {}
# FIXME: pass the fold_panels
# Compute the preset values for each preset
self._preset_values = {} # dict string -> dict (SettingEntries -> value)
self._orig_entries = get_global_settings_entries(self._settings_controller)
for sc in self.streambar_controller.stream_controllers:
self._orig_entries += get_local_settings_entries(sc)
self._orig_settings = preset_as_is(self._orig_entries) # to detect changes
for n, preset in presets.items():
self._preset_values[n] = preset(self._orig_entries)
# Presets which have been confirmed on the hardware
self._presets_confirmed = set() # (string)
self.start_listening_to_va()
# If it could be possible to do fine alignment, allow the user to choose
if self._can_fine_align(self._tab_data_model.streams.value):
self.chkbox_fine_align.Show()
# Set to True to make it the default, but will be automatically
# disabled later if the current visible streams don't allow it.
self.chkbox_fine_align.Value = True
for s in self._tab_data_model.streams.value:
if isinstance(s, EMStream):
em_det = s.detector
em_emt = s.emitter
elif isinstance(s, OpticalStream) and not isinstance(s, ScannedFluoStream):
opt_det = s.detector
self._ovrl_stream = stream.OverlayStream("Fine alignment", opt_det, em_emt, em_det,
opm=self._main_data_model.opm)
self._ovrl_stream.dwellTime.value = self._main_data_model.fineAlignDwellTime.value
else:
self.chkbox_fine_align.Show(False)
self.chkbox_fine_align.Value = False
self._prev_fine_align = self.chkbox_fine_align.Value
# make sure the view displays the same thing as the one we are
# duplicating
self._view.view_pos.value = orig_view.view_pos.value
self._view.mpp.value = orig_view.mpp.value
self._view.merge_ratio.value = orig_view.merge_ratio.value
# attach the view to the viewport
self.pnl_view_acq.canvas.fit_view_to_next_image = False
self.pnl_view_acq.setView(self._view, self._tab_data_model)
# The TOOL_ROA is not present because we don't allow the user to change
# the ROA), so we need to explicitly request the canvas to show the ROA.
if hasattr(self._tab_data_model, "roa") and self._tab_data_model.roa is not None:
cnvs = self.pnl_view_acq.canvas
self.roa_overlay = RepetitionSelectOverlay(cnvs, self._tab_data_model.roa,
self._tab_data_model.fovComp)
cnvs.add_world_overlay(self.roa_overlay)
self.Bind(wx.EVT_CHAR_HOOK, self.on_key)
self.btn_cancel.Bind(wx.EVT_BUTTON, self.on_close)
self.btn_change_file.Bind(wx.EVT_BUTTON, self.on_change_file)
self.btn_secom_acquire.Bind(wx.EVT_BUTTON, self.on_acquire)
self.cmb_presets.Bind(wx.EVT_COMBOBOX, self.on_preset)
self.Bind(wx.EVT_CLOSE, self.on_close)
# on_streams_changed is compatible because it doesn't use the args
self.chkbox_fine_align.Bind(wx.EVT_CHECKBOX, self.on_streams_changed)
self.on_preset(None) # will force setting the current preset
# To update the estimated time when streams are removed/added
self._view.stream_tree.flat.subscribe(self.on_streams_changed)
self._hidden_view.stream_tree.flat.subscribe(self.on_streams_changed)
def __init__(self, parent, orig_tab_data):
xrcfr_overview_acq.__init__(self, parent)
self.conf = get_acqui_conf()
# True when acquisition occurs
self.acquiring = False
self.data = None
# a ProgressiveFuture if the acquisition is going on
self.acq_future = None
self._acq_future_connector = None
self._main_data_model = orig_tab_data.main
# duplicate the interface, but with only one view
self._tab_data_model = self.duplicate_tab_data_model(orig_tab_data)
# The pattern to use for storing each tile file individually
# None disables storing them
self.filename_tiles = create_filename(self.conf.last_path, "{datelng}-{timelng}-overview",
".ome.tiff")
# Create a new settings controller for the acquisition dialog
self._settings_controller = LocalizationSettingsController(
self,
self._tab_data_model,
highlight_change=True # also adds a "Reset" context menu
)
self.zsteps = model.IntContinuous(1, range=(1, 51))
self._zsteps_vac = VigilantAttributeConnector(self.zsteps, self.zstack_steps, events=wx.EVT_SLIDER)
orig_view = orig_tab_data.focussedView.value
self._view = self._tab_data_model.focussedView.value
self.streambar_controller = StreamBarController(self._tab_data_model,
self.pnl_secom_streams,
static=True,
ignore_view=True)
# The streams currently displayed are the one visible
self.add_streams()
# The list of streams ready for acquisition (just used as a cache)
self._acq_streams = {}
# Compute the preset values for each preset
self._orig_entries = get_global_settings_entries(self._settings_controller)
self._orig_settings = preset_as_is(self._orig_entries)
for sc in self.streambar_controller.stream_controllers:
self._orig_entries += get_local_settings_entries(sc)
self.start_listening_to_va()
# make sure the view displays the same thing as the one we are
# duplicating
self._view.view_pos.value = orig_view.view_pos.value
self._view.mpp.value = orig_view.mpp.value
self._view.merge_ratio.value = orig_view.merge_ratio.value
# attach the view to the viewport
self.pnl_view_acq.canvas.fit_view_to_next_image = False
self.pnl_view_acq.setView(self._view, self._tab_data_model)
self.Bind(wx.EVT_CHAR_HOOK, self.on_key)
self.btn_cancel.Bind(wx.EVT_BUTTON, self.on_close)
self.btn_secom_acquire.Bind(wx.EVT_BUTTON, self.on_acquire)
self.Bind(wx.EVT_CLOSE, self.on_close)
# on_streams_changed is compatible because it doesn't use the args
# To update the estimated time when streams are removed/added
self._view.stream_tree.flat.subscribe(self.on_streams_changed)
# Set parameters for tiled acq
self.overlap = 0.2
try:
# Use the stage range, which can be overridden by the MD_POS_ACTIVE_RANGE,
# which can be overridden by MD_OVERVIEW_RANGE.
# Note: this last one might be temporary, until we have a RoA tool provided in the GUI.
stage_rng = {
"x": self._main_data_model.stage.axes["x"].range,
"y": self._main_data_model.stage.axes["y"].range
}
stage_md = self._main_data_model.stage.getMetadata()
if model.MD_POS_ACTIVE_RANGE in stage_md:
stage_rng.update(stage_md[model.MD_POS_ACTIVE_RANGE])
if model.MD_OVERVIEW_RANGE in stage_md:
stage_rng.update(stage_md[model.MD_OVERVIEW_RANGE])
# left, bottom, right, top
self.area = (stage_rng["x"][0], stage_rng["y"][0], stage_rng["x"][1], stage_rng["y"][1])
except (KeyError, IndexError):
raise ValueError("Failed to find stage.MD_POS_ACTIVE_RANGE with x and y range")
# Note: It should never be possible to reach here with no streams
streams = self.get_acq_streams()
for s in streams:
self._view.addStream(s)
self.update_acquisition_time()
def __init__(self, parent, orig_tab_data):
xrcfr_acq.__init__(self, parent)
self.conf = get_acqui_conf()
for n in presets:
self.cmb_presets.Append(n)
# TODO: record and reuse the preset used?
self.cmb_presets.Select(0)
self.filename = model.StringVA(self._get_default_filename())
self.filename.subscribe(self._onFilename, init=True)
# The name of the last file that got written to disk (used for auto viewing on close)
self.last_saved_file = None
# a ProgressiveFuture if the acquisition is going on
self.acq_future = None
self._acq_future_connector = None
self._main_data_model = orig_tab_data.main
# duplicate the interface, but with only one view
self._tab_data_model = self.duplicate_tab_data_model(orig_tab_data)
# Create a new settings controller for the acquisition dialog
self._settings_controller = SecomSettingsController(
self,
self._tab_data_model,
highlight_change=True # also adds a "Reset" context menu
)
# To turn on/off the fan
self._orig_fan_speed = None
orig_view = orig_tab_data.focussedView.value
self._view = self._tab_data_model.focussedView.value
self.streambar_controller = StreamBarController(self._tab_data_model,
self.pnl_secom_streams)
# The streams currently displayed are the one visible
self.add_all_streams()
# FIXME: pass the fold_panels
# Compute the preset values for each preset
self._preset_values = {} # dict string -> dict (SettingEntries -> value)
orig_entries = get_global_settings_entries(self._settings_controller)
for sc in self.streambar_controller.stream_controllers:
orig_entries += get_local_settings_entries(sc)
self._orig_settings = preset_as_is(orig_entries) # to detect changes
for n, preset in presets.items():
self._preset_values[n] = preset(orig_entries)
# Presets which have been confirmed on the hardware
self._presets_confirmed = set() # (string)
# If it could be possible to do fine alignment, allow the user to choose
if self._can_fine_align(self._tab_data_model.streams.value):
self.chkbox_fine_align.Show()
# Set to True to make it the default, but will be automatically
# disabled later if the current visible streams don't allow it.
self.chkbox_fine_align.Value = True
for s in self._tab_data_model.streams.value:
if isinstance(s, EMStream):
em_det = s.detector
em_emt = s.emitter
elif isinstance(s, OpticalStream):
opt_det = s.detector
self._ovrl_stream = stream.OverlayStream("Fine alignment", opt_det, em_emt, em_det)
if self._main_data_model.role == "delphi":
self._main_data_model.fineAlignDwellTime.value = 0.5
self._ovrl_stream.dwellTime.value = self._main_data_model.fineAlignDwellTime.value
else:
self.chkbox_fine_align.Show(False)
self.chkbox_fine_align.Value = False
self._prev_fine_align = self.chkbox_fine_align.Value
# make sure the view displays the same thing as the one we are
# duplicating
self._view.view_pos.value = orig_view.view_pos.value
self._view.mpp.value = orig_view.mpp.value
self._view.merge_ratio.value = orig_view.merge_ratio.value
# attach the view to the viewport
self.pnl_view_acq.canvas.fit_view_to_next_image = False
self.pnl_view_acq.setView(self._view, self._tab_data_model)
self.Bind(wx.EVT_CHAR_HOOK, self.on_key)
self.btn_cancel.Bind(wx.EVT_BUTTON, self.on_close)
self.btn_change_file.Bind(wx.EVT_BUTTON, self.on_change_file)
self.btn_secom_acquire.Bind(wx.EVT_BUTTON, self.on_acquire)
self.cmb_presets.Bind(wx.EVT_COMBOBOX, self.on_preset)
self.Bind(wx.EVT_CLOSE, self.on_close)
# on_streams_changed is compatible because it doesn't use the args
self.chkbox_fine_align.Bind(wx.EVT_CHECKBOX, self.on_streams_changed)
self.on_preset(None) # will force setting the current preset
# TODO: use the presets VAs and subscribe to each of them, instead of
# using pub/sub messages
pub.subscribe(self.on_setting_change, 'setting.changed')
# TODO: we should actually listen to the stream tree, but it's not
# currently possible. => listen to .flat once it's there
# Currently just use view.lastUpdate which should be "similar"
# (but doesn't work if the stream contains no image)
self._view.lastUpdate.subscribe(self.on_streams_changed)
def __init__(self, parent, orig_tab_data):
xrcfr_overview_acq.__init__(self, parent)
self.conf = get_acqui_conf()
# True when acquisition occurs
self.acquiring = False
self.data = None
# a ProgressiveFuture if the acquisition is going on
self.acq_future = None
self._acq_future_connector = None
self._main_data_model = orig_tab_data.main
# duplicate the interface, but with only one view
self._tab_data_model = self.duplicate_tab_data_model(orig_tab_data)
# Store the final image as {datelng}-{timelng}-overview
# The pattern to store them in a sub folder, with the name xxxx-overview-tiles/xxx-overview-NxM.ome.tiff
# The pattern to use for storing each tile file individually
# None disables storing them
save_dir = self.conf.last_path
if isinstance(orig_tab_data, guimodel.CryoGUIData):
save_dir = self.conf.pj_last_path
self.filename = create_filename(save_dir,
"{datelng}-{timelng}-overview",
".ome.tiff")
assert self.filename.endswith(".ome.tiff")
dirname, basename = os.path.split(self.filename)
tiles_dir = os.path.join(dirname,
basename[:-len(".ome.tiff")] + "-tiles")
self.filename_tiles = os.path.join(tiles_dir, basename)
# Create a new settings controller for the acquisition dialog
self._settings_controller = LocalizationSettingsController(
self,
self._tab_data_model,
)
self.zsteps = model.IntContinuous(1, range=(1, 51))
# The depth of field is an indication of how far the focus needs to move
# to see the current in-focus position out-of-focus. So it's a good default
# value for the zstep size. We use 2x to "really" see something else.
# Typically, it's about 1 µm.
dof = self._main_data_model.ccd.depthOfField.value
self.zstep_size = model.FloatContinuous(2 * dof,
range=(1e-9, 100e-6),
unit="m")
self._zstep_size_vac = VigilantAttributeConnector(
self.zstep_size, self.zstep_size_ctrl, events=wx.EVT_COMMAND_ENTER)
self.tiles_nx = model.IntContinuous(5, range=(1, 1000))
self.tiles_ny = model.IntContinuous(5, range=(1, 1000))
self._zsteps_vac = VigilantAttributeConnector(self.zsteps,
self.zstack_steps,
events=wx.EVT_SLIDER)
self._tiles_n_vacx = VigilantAttributeConnector(
self.tiles_nx, self.tiles_number_x, events=wx.EVT_COMMAND_ENTER)
self._tiles_n_vacy = VigilantAttributeConnector(
self.tiles_ny, self.tiles_number_y, events=wx.EVT_COMMAND_ENTER)
self.area = None # None or 4 floats: left, top, right, bottom positions of the acquisition area (in m)
orig_view = orig_tab_data.focussedView.value
self._view = self._tab_data_model.focussedView.value
self.streambar_controller = StreamBarController(self._tab_data_model,
self.pnl_secom_streams,
static=True,
ignore_view=True)
# The streams currently displayed are the one visible
self.add_streams()
# The list of streams ready for acquisition (just used as a cache)
self._acq_streams = {}
# Find every setting, and listen to it
self._orig_entries = get_global_settings_entries(
self._settings_controller)
for sc in self.streambar_controller.stream_controllers:
self._orig_entries += get_local_settings_entries(sc)
self.start_listening_to_va()
# make sure the view displays the same thing as the one we are
# duplicating
self._view.view_pos.value = orig_view.view_pos.value
self._view.mpp.value = orig_view.mpp.value
self._view.merge_ratio.value = orig_view.merge_ratio.value
# attach the view to the viewport
self.pnl_view_acq.canvas.fit_view_to_next_image = False
self.pnl_view_acq.setView(self._view, self._tab_data_model)
self.Bind(wx.EVT_CHAR_HOOK, self.on_key)
self.btn_cancel.Bind(wx.EVT_BUTTON, self.on_close)
self.btn_secom_acquire.Bind(wx.EVT_BUTTON, self.on_acquire)
self.Bind(wx.EVT_CLOSE, self.on_close)
# Set parameters for tiled acq
self.overlap = 0.2
try:
# Use the stage range, which can be overridden by the MD_POS_ACTIVE_RANGE.
# Note: this last one might be temporary, until we have a RoA tool provided in the GUI.
self._tiling_rng = {
"x": self._main_data_model.stage.axes["x"].range,
"y": self._main_data_model.stage.axes["y"].range
}
stage_md = self._main_data_model.stage.getMetadata()
if model.MD_POS_ACTIVE_RANGE in stage_md:
self._tiling_rng.update(stage_md[model.MD_POS_ACTIVE_RANGE])
except (KeyError, IndexError):
raise ValueError(
"Failed to find stage.MD_POS_ACTIVE_RANGE with x and y range")
# Note: It should never be possible to reach here with no streams
streams = self.get_acq_streams()
for s in streams:
self._view.addStream(s)
# To update the estimated time & area when streams are removed/added
self._view.stream_tree.flat.subscribe(self.on_streams_changed,
init=True)
def __init__(self, parent, orig_tab_data):
xrcfr_acq.__init__(self, parent)
self.conf = get_acqui_conf()
for n in presets:
self.cmb_presets.Append(n)
# TODO: record and reuse the preset used?
self.cmb_presets.Select(0)
self.filename = model.StringVA(self._get_default_filename())
self.filename.subscribe(self._onFilename, init=True)
# The name of the last file that got written to disk (used for auto viewing on close)
self.last_saved_file = None
# a ProgressiveFuture if the acquisition is going on
self.acq_future = None
self._acq_future_connector = None
self._main_data_model = orig_tab_data.main
# duplicate the interface, but with only one view
self._tab_data_model = self.duplicate_tab_data_model(orig_tab_data)
# Create a new settings controller for the acquisition dialog
self._settings_controller = SecomSettingsController(
self,
self._tab_data_model,
highlight_change=True # also adds a "Reset" context menu
)
# To turn on/off the fan
self._orig_fan_speed = None
self._orig_fan_temp = None
orig_view = orig_tab_data.focussedView.value
self._view = self._tab_data_model.focussedView.value
self.streambar_controller = StreamBarController(
self._tab_data_model, self.pnl_secom_streams)
# The streams currently displayed are the one visible
self.add_all_streams()
# FIXME: pass the fold_panels
# Compute the preset values for each preset
self._preset_values = {
} # dict string -> dict (SettingEntries -> value)
orig_entries = get_global_settings_entries(self._settings_controller)
for sc in self.streambar_controller.stream_controllers:
orig_entries += get_local_settings_entries(sc)
self._orig_settings = preset_as_is(orig_entries) # to detect changes
for n, preset in presets.items():
self._preset_values[n] = preset(orig_entries)
# Presets which have been confirmed on the hardware
self._presets_confirmed = set() # (string)
# If it could be possible to do fine alignment, allow the user to choose
if self._can_fine_align(self._tab_data_model.streams.value):
self.chkbox_fine_align.Show()
# Set to True to make it the default, but will be automatically
# disabled later if the current visible streams don't allow it.
self.chkbox_fine_align.Value = True
for s in self._tab_data_model.streams.value:
if isinstance(s, EMStream):
em_det = s.detector
em_emt = s.emitter
elif isinstance(s, OpticalStream):
opt_det = s.detector
self._ovrl_stream = stream.OverlayStream("Fine alignment", opt_det,
em_emt, em_det)
self._ovrl_stream.dwellTime.value = self._main_data_model.fineAlignDwellTime.value
else:
self.chkbox_fine_align.Show(False)
self.chkbox_fine_align.Value = False
self._prev_fine_align = self.chkbox_fine_align.Value
# make sure the view displays the same thing as the one we are
# duplicating
self._view.view_pos.value = orig_view.view_pos.value
self._view.mpp.value = orig_view.mpp.value
self._view.merge_ratio.value = orig_view.merge_ratio.value
# attach the view to the viewport
self.pnl_view_acq.canvas.fit_view_to_next_image = False
self.pnl_view_acq.setView(self._view, self._tab_data_model)
self.Bind(wx.EVT_CHAR_HOOK, self.on_key)
self.btn_cancel.Bind(wx.EVT_BUTTON, self.on_close)
self.btn_change_file.Bind(wx.EVT_BUTTON, self.on_change_file)
self.btn_secom_acquire.Bind(wx.EVT_BUTTON, self.on_acquire)
self.cmb_presets.Bind(wx.EVT_COMBOBOX, self.on_preset)
self.Bind(wx.EVT_CLOSE, self.on_close)
# on_streams_changed is compatible because it doesn't use the args
self.chkbox_fine_align.Bind(wx.EVT_CHECKBOX, self.on_streams_changed)
self.on_preset(None) # will force setting the current preset
# TODO: use the presets VAs and subscribe to each of them, instead of
# using pub/sub messages
pub.subscribe(self.on_setting_change, 'setting.changed')
# TODO: we should actually listen to the stream tree, but it's not
# currently possible. => listen to .flat once it's there
# Currently just use view.lastUpdate which should be "similar"
# (but doesn't work if the stream contains no image)
self._view.lastUpdate.subscribe(self.on_streams_changed)
def __init__(self, parent, orig_tab_data):
xrcfr_acq.__init__(self, parent)
self.conf = get_acqui_conf()
for n in presets:
self.cmb_presets.Append(n)
# TODO: record and reuse the preset used?
self.cmb_presets.Select(0)
self.filename = model.StringVA(create_filename(self.conf.last_path, self.conf.fn_ptn,
self.conf.last_extension, self.conf.fn_count))
self.filename.subscribe(self._onFilename, init=True)
# The name of the last file that got written to disk (used for auto viewing on close)
self.last_saved_file = None
# True when acquisition occurs
self.acquiring = False
# a ProgressiveFuture if the acquisition is going on
self.acq_future = None
self._acq_future_connector = None
self._main_data_model = orig_tab_data.main
# duplicate the interface, but with only one view
self._tab_data_model = self.duplicate_tab_data_model(orig_tab_data)
# Create a new settings controller for the acquisition dialog
self._settings_controller = SecomSettingsController(
self,
self._tab_data_model,
highlight_change=True # also adds a "Reset" context menu
)
orig_view = orig_tab_data.focussedView.value
self._view = self._tab_data_model.focussedView.value
self._hidden_view = StreamView("Plugin View Hidden")
self.streambar_controller = StreamBarController(self._tab_data_model,
self.pnl_secom_streams,
static=True,
ignore_view=True)
# The streams currently displayed are the one visible
self.add_all_streams()
# The list of streams ready for acquisition (just used as a cache)
self._acq_streams = {}
# FIXME: pass the fold_panels
# Compute the preset values for each preset
self._preset_values = {} # dict string -> dict (SettingEntries -> value)
self._orig_entries = get_global_settings_entries(self._settings_controller)
for sc in self.streambar_controller.stream_controllers:
self._orig_entries += get_local_settings_entries(sc)
self._orig_settings = preset_as_is(self._orig_entries) # to detect changes
for n, preset in presets.items():
self._preset_values[n] = preset(self._orig_entries)
# Presets which have been confirmed on the hardware
self._presets_confirmed = set() # (string)
self.start_listening_to_va()
# If it could be possible to do fine alignment, allow the user to choose
if self._can_fine_align(self._tab_data_model.streams.value):
self.chkbox_fine_align.Show()
# Set to True to make it the default, but will be automatically
# disabled later if the current visible streams don't allow it.
self.chkbox_fine_align.Value = True
for s in self._tab_data_model.streams.value:
if isinstance(s, EMStream):
em_det = s.detector
em_emt = s.emitter
elif isinstance(s, OpticalStream) and not isinstance(s, ScannedFluoStream):
opt_det = s.detector
self._ovrl_stream = stream.OverlayStream("Fine alignment", opt_det, em_emt, em_det,
opm=self._main_data_model.opm)
self._ovrl_stream.dwellTime.value = self._main_data_model.fineAlignDwellTime.value
else:
self.chkbox_fine_align.Show(False)
self.chkbox_fine_align.Value = False
self._prev_fine_align = self.chkbox_fine_align.Value
# make sure the view displays the same thing as the one we are
# duplicating
self._view.view_pos.value = orig_view.view_pos.value
self._view.mpp.value = orig_view.mpp.value
self._view.merge_ratio.value = orig_view.merge_ratio.value
# attach the view to the viewport
self.pnl_view_acq.canvas.fit_view_to_next_image = False
self.pnl_view_acq.setView(self._view, self._tab_data_model)
# The TOOL_ROA is not present because we don't allow the user to change
# the ROA), so we need to explicitly request the canvas to show the ROA.
if hasattr(self._tab_data_model, "roa") and self._tab_data_model.roa is not None:
cnvs = self.pnl_view_acq.canvas
self.roa_overlay = RepetitionSelectOverlay(cnvs, self._tab_data_model.roa,
self._tab_data_model.fovComp)
cnvs.add_world_overlay(self.roa_overlay)
self.Bind(wx.EVT_CHAR_HOOK, self.on_key)
self.btn_cancel.Bind(wx.EVT_BUTTON, self.on_close)
self.btn_change_file.Bind(wx.EVT_BUTTON, self.on_change_file)
self.btn_secom_acquire.Bind(wx.EVT_BUTTON, self.on_acquire)
self.cmb_presets.Bind(wx.EVT_COMBOBOX, self.on_preset)
self.Bind(wx.EVT_CLOSE, self.on_close)
# on_streams_changed is compatible because it doesn't use the args
self.chkbox_fine_align.Bind(wx.EVT_CHECKBOX, self.on_streams_changed)
self.on_preset(None) # will force setting the current preset
# To update the estimated time when streams are removed/added
self._view.stream_tree.flat.subscribe(self.on_streams_changed)
self._hidden_view.stream_tree.flat.subscribe(self.on_streams_changed)