def get_acquisition_handler_fn(multi_acquire_parameters, current_parameters_index, multi_acquire_settings):
camera_frame_parameters = camera_hardware_source.get_current_frame_parameters()
scan_frame_parameters = scan_hardware_source.get_current_frame_parameters()
camera_frame_parameters.exposure_ms = multi_acquire_parameters[current_parameters_index]['exposure_ms']
camera_frame_parameters.processing = multi_acquire_settings['processing']
scan_frame_parameters.scan_id = scan_frame_parameters.scan_id or uuid.uuid4()
grab_synchronized_info = scan_hardware_source.grab_synchronized_get_info(scan_frame_parameters=scan_frame_parameters,
camera=camera_hardware_source,
camera_frame_parameters=camera_frame_parameters)
camera_data_channel = MultiAcquire.CameraDataChannel(document_model, camera_hardware_source.display_name, grab_synchronized_info,
multi_acquire_parameters, multi_acquire_settings, current_parameters_index,
stack_metadata_keys=[['hardware_source', 'defocus']])
enabled_channels = scan_hardware_source.get_enabled_channels()
enabled_channel_names = [scan_hardware_source.data_channels[i].name for i in enabled_channels]
scan_data_channel = MultiAcquire.ScanDataChannel(document_model, enabled_channel_names, grab_synchronized_info,
multi_acquire_parameters, multi_acquire_settings, current_parameters_index)
camera_data_channel.start()
scan_data_channel.start()
sequence_behavior = MultiAcquire.SequenceBehavior(multi_acquire_controller, current_parameters_index)
si_sequence_behavior = MultiAcquire.SISequenceBehavior(None, None, sequence_behavior, 1)
handler = MultiAcquire.SISequenceAcquisitionHandler(camera_hardware_source, camera_data_channel, camera_frame_parameters,
scan_hardware_source, scan_data_channel, scan_frame_parameters,
si_sequence_behavior)
listener = handler.camera_data_channel.progress_updated_event.listen(multi_acquire_controller.set_progress_counter)
def finish_fn():
listener.close()
handler.camera_data_channel.stop()
handler.scan_data_channel.stop()
handler.finish_fn = finish_fn
return handler
def create_channels() -> None:
assert camera
assert scan_controller
nonlocal camera_data_channel, scan_data_channel
stack_metadata_keys = getattr(camera.camera,
'stack_metadata_keys',
None)
camera_data_channel = MultiAcquire.CameraDataChannel(
document_model,
camera.display_name,
grab_synchronized_info,
multi_acquire_parameters,
multi_acquire_settings,
current_parameters_index,
stack_metadata_keys=stack_metadata_keys)
enabled_channels = scan_controller.get_enabled_channels(
)
enabled_channel_names = [
scan_controller.data_channels[i].name or str()
for i in enabled_channels
]
scan_data_channel = MultiAcquire.ScanDataChannel(
document_model, enabled_channel_names,
grab_synchronized_info, multi_acquire_parameters,
multi_acquire_settings, current_parameters_index)
camera_data_channel.start()
scan_data_channel.start()
channels_ready_event.set()
def get_acquisition_handler_fn(
multi_acquire_parameters,
current_parameters_index,
multi_acquire_settings):
camera_frame_parameters = camera.get_current_frame_parameters(
)
scan_frame_parameters = scan_controller.get_current_frame_parameters(
)
camera_frame_parameters[
'exposure_ms'] = multi_acquire_parameters[
current_parameters_index][
'exposure_ms']
camera_frame_parameters[
'processing'] = 'sum_project' if multi_acquire_settings[
'bin_spectra'] else None
scan_frame_parameters.setdefault(
'scan_id', str(uuid.uuid4()))
grab_synchronized_info = scan_controller.grab_synchronized_get_info(
scan_frame_parameters=scan_frame_parameters,
camera=camera,
camera_frame_parameters=
camera_frame_parameters)
camera_data_channel = MultiAcquire.CameraDataChannel(
document_model, camera.display_name,
grab_synchronized_info,
multi_acquire_parameters,
multi_acquire_settings,
current_parameters_index)
enabled_channels = scan_controller.get_enabled_channels(
)
enabled_channel_names = [
scan_controller.data_channels[i].name
for i in enabled_channels
]
scan_data_channel = MultiAcquire.ScanDataChannel(
document_model, enabled_channel_names,
grab_synchronized_info,
multi_acquire_parameters,
multi_acquire_settings,
current_parameters_index)
camera_data_channel.start()
scan_data_channel.start()
handler = MultiAcquire.SISequenceAcquisitionHandler(
camera, camera_data_channel,
camera_frame_parameters, scan_controller,
scan_data_channel, scan_frame_parameters)
listener = handler.camera_data_channel.progress_updated_event.listen(
multi_acquire_controller.
set_progress_counter)
def finish_fn():
listener.close()
handler.camera_data_channel.stop()
handler.scan_data_channel.stop()
handler.finish_fn = finish_fn
return handler
def __init__(self, api):
self.__api = api
self.panel_id = 'MultiAcquire-Panel'
self.panel_name = 'Multi-Acquire'
self.panel_positions = ['left', 'right']
self.panel_position = 'right'
self.api = api
self.line_edit_widgets = {}
self.push_button_widgets = {}
self.multi_acquire_controller = MultiAcquire.MultiAcquireController()
self.__acquisition_state_changed_event_listener = self.multi_acquire_controller.acquisition_state_changed_event.listen(
self.acquisition_state_changed)
self.__multi_eels_parameters_changed_event_listener = self.multi_acquire_controller.spectrum_parameters.parameters_changed_event.listen(
self.spectrum_parameters_changed)
self.__progress_updated_event_listener = self.multi_acquire_controller.progress_updated_event.listen(
self.update_progress_bar)
self.__settings_changed_event_listener = None
self.__component_registered_event_listener = None
self.__component_unregistered_event_listener = None
self.__superscan_frame_parameters_changed_event_listener = None
self.__new_data_ready_event_listener = None
self._stem_controller = None
self.eels_camera = None
self._superscan = None
self.settings_window_open = False
self.parameters_window_open = False
self.parameter_column = None
self.result_data_items = {}
self.__result_data_items_refs = []
self.__acquisition_running = False
self.__display_queue = queue.Queue()
self.__display_thread = None
self.__acquisition_thread = None
self.__data_processed_event = threading.Event()
def _set_up_multi_acquire(self,
settings: dict,
parameters: list,
multi_acquire_instance=None):
multi_acquire = multi_acquire_instance or MultiAcquire.MultiAcquireController(
)
multi_acquire._MultiAcquireController__savepath = None
multi_acquire.settings.update(settings)
multi_acquire.spectrum_parameters[:] = parameters
return multi_acquire
def create_channels():
nonlocal camera_data_channel, scan_data_channel
camera_data_channel = MultiAcquire.CameraDataChannel(
document_model, camera.display_name,
grab_synchronized_info, multi_acquire_parameters,
multi_acquire_settings, current_parameters_index)
enabled_channels = self.scan_controller.get_enabled_channels(
)
enabled_channel_names = [
self.scan_controller.data_channels[i].name
for i in enabled_channels
]
scan_data_channel = MultiAcquire.ScanDataChannel(
document_model, enabled_channel_names,
grab_synchronized_info, multi_acquire_parameters,
multi_acquire_settings, current_parameters_index)
camera_data_channel.start()
scan_data_channel.start()
channels_ready_event.set()
def create_acquisition_handler(
multi_acquire_parameters: MultiAcquire.MultiEELSParameters,
current_parameters_index: int,
multi_acquire_settings: MultiAcquire.MultiEELSSettings
) -> MultiAcquire.SISequenceAcquisitionHandler:
assert camera
assert scan_controller
assert multi_acquire_controller
document_model = self.document_controller._document_controller.document_model
camera_frame_parameters = camera.get_current_frame_parameters(
)
scan_frame_parameters = scan_controller.get_current_frame_parameters(
)
camera_frame_parameters.exposure_ms = multi_acquire_parameters[
current_parameters_index]['exposure_ms']
camera_frame_parameters.processing = multi_acquire_settings[
'processing']
scan_frame_parameters.scan_id = scan_frame_parameters.scan_id or uuid.uuid4(
)
grab_synchronized_info = scan_controller.grab_synchronized_get_info(
scan_frame_parameters=scan_frame_parameters,
camera=camera,
camera_frame_parameters=camera_frame_parameters)
camera_data_channel: typing.Optional[
MultiAcquire.CameraDataChannel] = None
scan_data_channel: typing.Optional[
MultiAcquire.ScanDataChannel] = None
channels_ready_event = threading.Event()
def create_channels() -> None:
assert camera
assert scan_controller
nonlocal camera_data_channel, scan_data_channel
stack_metadata_keys = getattr(camera.camera,
'stack_metadata_keys',
None)
camera_data_channel = MultiAcquire.CameraDataChannel(
document_model,
camera.display_name,
grab_synchronized_info,
multi_acquire_parameters,
multi_acquire_settings,
current_parameters_index,
stack_metadata_keys=stack_metadata_keys)
enabled_channels = scan_controller.get_enabled_channels(
)
enabled_channel_names = [
scan_controller.data_channels[i].name or str()
for i in enabled_channels
]
scan_data_channel = MultiAcquire.ScanDataChannel(
document_model, enabled_channel_names,
grab_synchronized_info, multi_acquire_parameters,
multi_acquire_settings, current_parameters_index)
camera_data_channel.start()
scan_data_channel.start()
channels_ready_event.set()
self.document_controller.queue_task(create_channels)
assert channels_ready_event.wait(10)
assert camera_data_channel
assert scan_data_channel
sequence_behavior = MultiAcquire.SequenceBehavior(
multi_acquire_controller, current_parameters_index)
si_sequence_behavior = MultiAcquire.SISequenceBehavior(
None, None, sequence_behavior, 1)
handler = MultiAcquire.SISequenceAcquisitionHandler(
camera, camera_data_channel, camera_frame_parameters,
scan_controller, scan_data_channel,
scan_frame_parameters, si_sequence_behavior)
listener = handler.camera_data_channel.progress_updated_event.listen(
multi_acquire_controller.set_progress_counter)
def finish_fn() -> None:
listener.close()
def close_channels() -> None:
handler.camera_data_channel.stop()
handler.scan_data_channel.stop()
self.document_controller.queue_task(close_channels)
handler.finish_fn = finish_fn
return handler
def create_panel_widget(
self, ui: Facade.UserInterface,
document_controller: Facade.DocumentWindow) -> Facade.ColumnWidget:
# note: anything created here should be disposed in close.
# this method may be called more than once.
if not self.stem_controller:
return ui.create_column_widget()
self.line_edit_widgets = dict()
self._stem_controller = None
self._camera = None
self._scan_controller = None
self.multi_acquire_controller = MultiAcquire.MultiAcquireController(
self.stem_controller,
savepath=os.path.join(os.path.expanduser('~'), 'MultiAcquire'))
self.__acquisition_state_changed_event_listener = self.multi_acquire_controller.acquisition_state_changed_event.listen(
self.acquisition_state_changed)
self.__multi_eels_parameters_changed_event_listener = self.multi_acquire_controller.spectrum_parameters.parameters_changed_event.listen(
self.spectrum_parameters_changed)
self.__progress_updated_event_listener = self.multi_acquire_controller.progress_updated_event.listen(
self.update_progress_bar)
self.__settings_changed_event_listener = None
self.__component_registered_event_listener = None
self.__component_unregistered_event_listener = None
self.__scan_frame_parameters_changed_event_listener = None
self.__new_scan_data_ready_event_listener = None
self.settings_window_open = False
self.parameter_column = None
self.result_data_items = None
self.__acquisition_running = False
self.__acquisition_thread = None
self.ui = ui
self.document_controller = document_controller
def start_clicked() -> None:
multi_acquire_controller = self.multi_acquire_controller
if not multi_acquire_controller:
return
if self.__acquisition_running:
multi_acquire_controller.cancel()
else:
multi_acquire_controller.stem_controller = self.stem_controller
multi_acquire_controller.camera = self.camera
def run_multi_eels() -> None:
assert multi_acquire_controller
data_dict = multi_acquire_controller.acquire_multi_eels_spectrum(
)
def create_and_display_data_item() -> None:
self.create_result_data_item(data_dict)
document_controller.queue_task(create_and_display_data_item
) # must occur on UI thread
self.__acquisition_thread = threading.Thread(
target=run_multi_eels, daemon=True)
self.__acquisition_thread.start()
def start_si_clicked() -> None:
multi_acquire_controller = self.multi_acquire_controller
if not multi_acquire_controller:
return
if self.__acquisition_running:
multi_acquire_controller.cancel()
else:
# Camera must be accessed from the UI thread, so do it here and re-use later
camera = self.camera
scan_controller = self.scan_controller
assert camera
assert scan_controller
multi_acquire_controller.stem_controller = self.stem_controller
multi_acquire_controller.camera = camera
multi_acquire_controller.scan_controller = scan_controller
def create_acquisition_handler(
multi_acquire_parameters: MultiAcquire.MultiEELSParameters,
current_parameters_index: int,
multi_acquire_settings: MultiAcquire.MultiEELSSettings
) -> MultiAcquire.SISequenceAcquisitionHandler:
assert camera
assert scan_controller
assert multi_acquire_controller
document_model = self.document_controller._document_controller.document_model
camera_frame_parameters = camera.get_current_frame_parameters(
)
scan_frame_parameters = scan_controller.get_current_frame_parameters(
)
camera_frame_parameters.exposure_ms = multi_acquire_parameters[
current_parameters_index]['exposure_ms']
camera_frame_parameters.processing = multi_acquire_settings[
'processing']
scan_frame_parameters.scan_id = scan_frame_parameters.scan_id or uuid.uuid4(
)
grab_synchronized_info = scan_controller.grab_synchronized_get_info(
scan_frame_parameters=scan_frame_parameters,
camera=camera,
camera_frame_parameters=camera_frame_parameters)
camera_data_channel: typing.Optional[
MultiAcquire.CameraDataChannel] = None
scan_data_channel: typing.Optional[
MultiAcquire.ScanDataChannel] = None
channels_ready_event = threading.Event()
def create_channels() -> None:
assert camera
assert scan_controller
nonlocal camera_data_channel, scan_data_channel
stack_metadata_keys = getattr(camera.camera,
'stack_metadata_keys',
None)
camera_data_channel = MultiAcquire.CameraDataChannel(
document_model,
camera.display_name,
grab_synchronized_info,
multi_acquire_parameters,
multi_acquire_settings,
current_parameters_index,
stack_metadata_keys=stack_metadata_keys)
enabled_channels = scan_controller.get_enabled_channels(
)
enabled_channel_names = [
scan_controller.data_channels[i].name or str()
for i in enabled_channels
]
scan_data_channel = MultiAcquire.ScanDataChannel(
document_model, enabled_channel_names,
grab_synchronized_info, multi_acquire_parameters,
multi_acquire_settings, current_parameters_index)
camera_data_channel.start()
scan_data_channel.start()
channels_ready_event.set()
self.document_controller.queue_task(create_channels)
assert channels_ready_event.wait(10)
assert camera_data_channel
assert scan_data_channel
sequence_behavior = MultiAcquire.SequenceBehavior(
multi_acquire_controller, current_parameters_index)
si_sequence_behavior = MultiAcquire.SISequenceBehavior(
None, None, sequence_behavior, 1)
handler = MultiAcquire.SISequenceAcquisitionHandler(
camera, camera_data_channel, camera_frame_parameters,
scan_controller, scan_data_channel,
scan_frame_parameters, si_sequence_behavior)
listener = handler.camera_data_channel.progress_updated_event.listen(
multi_acquire_controller.set_progress_counter)
def finish_fn() -> None:
listener.close()
def close_channels() -> None:
handler.camera_data_channel.stop()
handler.scan_data_channel.stop()
self.document_controller.queue_task(close_channels)
handler.finish_fn = finish_fn
return handler
self.__acquisition_thread = threading.Thread(
target=multi_acquire_controller.
start_multi_acquire_spectrum_image,
args=(create_acquisition_handler, ))
self.__acquisition_thread.start()
def settings_button_clicked() -> None:
if not self.settings_window_open:
self.settings_window_open = True
self.show_config_box()
def help_clicked() -> None:
webbrowser.open(
'https://nionswift-instrumentation.readthedocs.io/en/latest/userguide.html#multi-acquire-panel',
new=2)
def camera_changed(
current_item: camera_base.CameraHardwareSource) -> None:
multi_acquire_controller = self.multi_acquire_controller
if current_item and multi_acquire_controller:
multi_acquire_controller.settings[
'camera_hardware_source_id'] = current_item.hardware_source_id
if current_item.features.get("has_masked_sum_option"):
self.binning_choice_combo_box.items = [
'Spectra', 'Images', 'MultiEELS Spectra',
'Virtual Detectors'
]
else:
self.binning_choice_combo_box.items = [
'Spectra', 'Images', 'MultiEELS Spectra'
]
binning_changed(
typing.cast(str,
self.binning_choice_combo_box.current_item))
def binning_changed(current_item: str) -> None:
multi_acquire_controller = self.multi_acquire_controller
if not multi_acquire_controller:
return
if not self.__acquisition_running:
self.start_button._widget.enabled = True
if current_item == 'Spectra':
multi_acquire_controller.settings['processing'] = 'sum_project'
multi_acquire_controller.settings[
'use_multi_eels_calibration'] = False
elif current_item == 'Images':
multi_acquire_controller.settings['processing'] = None
multi_acquire_controller.settings[
'use_multi_eels_calibration'] = False
elif current_item == 'MultiEELS Spectra':
multi_acquire_controller.settings['processing'] = 'sum_project'
multi_acquire_controller.settings[
'use_multi_eels_calibration'] = True
elif current_item == 'Virtual Detectors':
multi_acquire_controller.settings['processing'] = 'sum_masked'
multi_acquire_controller.settings[
'use_multi_eels_calibration'] = False
self.start_button._widget.enabled = False
camera_choice_row = ui.create_row_widget()
self.binning_choice_combo_box = ui.create_combo_box_widget()
# Delay connecting the callback functions because otherwise loading the plugin fails because "start button" is not defined yet
self.binning_choice_combo_box.items = [
'Spectra', 'Images', 'MultiEELS Spectra'
]
sliders_icon_png = pkgutil.get_data(__name__,
"resources/sliders_icon_24.png")
assert sliders_icon_png
settings_button = CanvasItem.BitmapButtonCanvasItem(
CanvasItem.load_rgba_data_from_bytes(sliders_icon_png, "png"))
settings_widget = ui._ui.create_canvas_widget(properties={
"height": 24,
"width": 24
})
settings_widget.canvas_item.add_canvas_item(settings_button)
settings_button.on_button_clicked = settings_button_clicked
help_icon_png = pkgutil.get_data(__name__,
"resources/help_icon_24.png")
assert help_icon_png
help_button = CanvasItem.BitmapButtonCanvasItem(
CanvasItem.load_rgba_data_from_bytes(help_icon_png, "png"))
help_widget = ui._ui.create_canvas_widget(properties={
"height": 24,
"width": 24
})
help_widget.canvas_item.add_canvas_item(help_button)
help_button.on_button_clicked = help_clicked
self.camera_choice_combo_box = ui.create_combo_box_widget(
item_text_getter=lambda camera: typing.cast(
str, getattr(camera, 'display_name')))
camera_choice_row.add_spacing(5)
camera_choice_row.add(self.camera_choice_combo_box)
camera_choice_row.add_spacing(10)
camera_choice_row.add(self.binning_choice_combo_box)
camera_choice_row.add_stretch()
camera_choice_row.add_spacing(10)
typing.cast(UserInterface.BoxWidget,
camera_choice_row._widget).add(help_widget)
camera_choice_row.add_spacing(10)
typing.cast(UserInterface.BoxWidget,
camera_choice_row._widget).add(settings_widget)
camera_choice_row.add_spacing(10)
self.update_camera_list()
self.update_current_camera()
self.__settings_changed_event_listener = self.multi_acquire_controller.settings.settings_changed_event.listen(
self.update_current_camera)
self.__settings_changed_event_listener_2 = self.multi_acquire_controller.settings.settings_changed_event.listen(
self.update_binning_combo_box)
def component_changed(component: typing.Any,
component_types: typing.Set[str]) -> None:
if 'camera_hardware_source' in component_types:
self.update_camera_list()
self.__component_registered_event_listener = Registry.listen_component_registered_event(
component_changed)
self.__component_unregistered_event_listener = Registry.listen_component_unregistered_event(
component_changed)
change_parameters_row = ui.create_row_widget()
change_parameters_row.add_spacing(5)
change_parameters_row.add(
ui.create_label_widget('MultiAcquire parameters:'))
change_parameters_row.add_stretch()
change_parameters_row.add_spacing(20)
parameter_description_row = ui.create_row_widget()
parameter_description_row.add_spacing(5)
parameter_description_row.add(ui.create_label_widget('#'))
parameter_description_row.add_spacing(20)
offset_label = ui.create_label_widget('Offset')
parameter_description_row.add(offset_label)
parameter_description_row.add_stretch()
parameter_description_row.add(ui.create_label_widget('Exposure (ms)'))
parameter_description_row.add_stretch()
parameter_description_row.add_stretch()
parameter_description_row.add_stretch()
frames_label = ui.create_label_widget('Frames')
parameter_description_row.add(frames_label)
parameter_description_row.add_stretch()
def update_offset_label() -> None:
multi_acquire_controller = self.multi_acquire_controller
if not multi_acquire_controller:
return
if multi_acquire_controller.settings['shift_each_sequence_slice']:
offset_label.text = 'Offset (per frame) '
else:
offset_label.text = 'Offset '
if multi_acquire_controller.settings['sum_frames']:
frames_label.text = 'Frames (summed)'
else:
frames_label.text = 'Frames '
update_offset_label()
self.__settings_changed_event_listener_3 = self.multi_acquire_controller.settings.settings_changed_event.listen(
update_offset_label)
add_remove_parameters_row = ui.create_row_widget()
add_parameters_button = ui.create_push_button_widget('+')
add_parameters_button._widget.set_property('width', 40)
add_parameters_button.on_clicked = self.multi_acquire_controller.add_spectrum
remove_parameters_button = ui.create_push_button_widget('-')
remove_parameters_button._widget.set_property('width', 40)
remove_parameters_button.on_clicked = self.multi_acquire_controller.remove_spectrum
add_remove_parameters_row.add_spacing(5)
add_remove_parameters_row.add(add_parameters_button)
add_remove_parameters_row.add_spacing(5)
add_remove_parameters_row.add(remove_parameters_button)
add_remove_parameters_row.add_spacing(90)
self.progress_bar = ui.create_progress_bar_widget()
add_remove_parameters_row.add(self.progress_bar)
add_remove_parameters_row.add_spacing(5)
time_estimate_row = ui.create_row_widget()
time_estimate_row.add_spacing(6)
self.time_estimate_label = ui.create_label_widget()
time_estimate_row.add(self.time_estimate_label)
time_estimate_row.add_spacing(5)
time_estimate_row.add_stretch()
self.si_time_estimate_label = ui.create_label_widget()
time_estimate_row.add(self.si_time_estimate_label)
time_estimate_row.add_spacing(6)
self.multi_acquire_controller.stem_controller = self.stem_controller
self.multi_acquire_controller.scan_controller = self.scan_controller
def frame_parameters_changed(
profile_index: int,
frame_parameters: scan_base.ScanFrameParameters) -> None:
self.update_time_estimate()
if self.scan_controller:
self.__scan_frame_parameters_changed_event_listener = self.scan_controller.frame_parameters_changed_event.listen(
frame_parameters_changed)
self.update_camera_list()
self.start_button = ui.create_push_button_widget('Start MultiAcquire')
self.start_button.on_clicked = start_clicked
self.start_si_button = ui.create_push_button_widget(
'Start MultiAcquire spectrum image')
self.start_si_button.on_clicked = start_si_clicked
start_row = ui.create_row_widget()
start_row.add_spacing(5)
start_row.add(self.start_button)
start_row.add_spacing(5)
start_row.add_stretch()
start_row.add(self.start_si_button)
start_row.add_spacing(5)
column = ui.create_column_widget()
column.add_spacing(5)
column.add(camera_choice_row)
column.add_spacing(10)
column.add(change_parameters_row)
column.add_spacing(5)
column.add(parameter_description_row)
column.add_spacing(10)
self.parameter_column = ui.create_column_widget()
for spectrum_parameters in self.multi_acquire_controller.spectrum_parameters:
line = self.create_parameter_line(spectrum_parameters)
self.parameter_column.add(line)
column.add(self.parameter_column)
column.add_spacing(5)
column.add(add_remove_parameters_row)
column.add_spacing(15)
column.add(time_estimate_row)
column.add_spacing(5)
column.add(start_row)
column.add_spacing(10)
column.add_stretch()
# Make sure we update the available options in the binning combo box.
camera_changed(
typing.cast(camera_base.CameraHardwareSource,
self.camera_choice_combo_box.current_item))
# Make sure the binning combo box shows the actual settings
self.update_binning_combo_box()
# Delay setting up the callbacks until the end to make sure loading the plugin doesn't fail due to missing attributes
self.binning_choice_combo_box.on_current_item_changed = binning_changed
self.camera_choice_combo_box.on_current_item_changed = camera_changed
return column
def create_acquisition_handler(multi_acquire_parameters: list,
current_parameters_index: int,
multi_acquire_settings: dict):
document_model = self.document_controller._document_controller.document_model
camera_frame_parameters = camera.get_current_frame_parameters(
)
scan_frame_parameters = self.scan_controller.get_current_frame_parameters(
)
camera_frame_parameters[
'exposure_ms'] = multi_acquire_parameters[
current_parameters_index]['exposure_ms']
camera_frame_parameters[
'processing'] = 'sum_project' if multi_acquire_settings[
'bin_spectra'] else None
scan_frame_parameters.setdefault('scan_id',
str(uuid.uuid4()))
grab_synchronized_info = self.scan_controller.grab_synchronized_get_info(
scan_frame_parameters=scan_frame_parameters,
camera=camera,
camera_frame_parameters=camera_frame_parameters)
camera_data_channel = None
scan_data_channel = None
channels_ready_event = threading.Event()
def create_channels():
nonlocal camera_data_channel, scan_data_channel
camera_data_channel = MultiAcquire.CameraDataChannel(
document_model, camera.display_name,
grab_synchronized_info, multi_acquire_parameters,
multi_acquire_settings, current_parameters_index)
enabled_channels = self.scan_controller.get_enabled_channels(
)
enabled_channel_names = [
self.scan_controller.data_channels[i].name
for i in enabled_channels
]
scan_data_channel = MultiAcquire.ScanDataChannel(
document_model, enabled_channel_names,
grab_synchronized_info, multi_acquire_parameters,
multi_acquire_settings, current_parameters_index)
camera_data_channel.start()
scan_data_channel.start()
channels_ready_event.set()
self.document_controller.queue_task(create_channels)
assert channels_ready_event.wait(10)
si_sequence_behavior = MultiAcquire.SISequenceBehavior(
None, None, None, None)
handler = MultiAcquire.SISequenceAcquisitionHandler(
camera, camera_data_channel, camera_frame_parameters,
self.scan_controller, scan_data_channel,
scan_frame_parameters, si_sequence_behavior)
listener = handler.camera_data_channel.progress_updated_event.listen(
self.multi_acquire_controller.set_progress_counter)
def finish_fn():
listener.close()
def close_channels():
handler.camera_data_channel.stop()
handler.scan_data_channel.stop()
self.document_controller.queue_task(close_channels)
handler.finish_fn = finish_fn
return handler
def create_panel_widget(self, ui, document_controller):
# note: anything created here should be disposed in close.
# this method may be called more than once.
self.line_edit_widgets = {}
self._stem_controller = None
self._camera = None
self._scan_controller = None
self.multi_acquire_controller = MultiAcquire.MultiAcquireController(
self.stem_controller,
savepath=os.path.join(os.path.expanduser('~'), 'MultiAcquire'))
self.__acquisition_state_changed_event_listener = self.multi_acquire_controller.acquisition_state_changed_event.listen(
self.acquisition_state_changed)
self.__multi_eels_parameters_changed_event_listener = self.multi_acquire_controller.spectrum_parameters.parameters_changed_event.listen(
self.spectrum_parameters_changed)
self.__progress_updated_event_listener = self.multi_acquire_controller.progress_updated_event.listen(
self.update_progress_bar)
self.__settings_changed_event_listener = None
self.__component_registered_event_listener = None
self.__component_unregistered_event_listener = None
self.__scan_frame_parameters_changed_event_listener = None
self.__new_scan_data_ready_event_listener = None
self.settings_window_open = False
self.parameter_column = None
self.result_data_items = None
self.__acquisition_running = False
self.__display_queue = None
self.__display_thread = None
self.__acquisition_thread = None
self.ui = ui
self.document_controller = document_controller
def start_clicked():
if self.__acquisition_running:
self.multi_acquire_controller.cancel()
else:
self.multi_acquire_controller.stem_controller = self.stem_controller
self.multi_acquire_controller.camera = self.camera
def run_multi_eels():
data_dict = self.multi_acquire_controller.acquire_multi_eels_spectrum(
)
def create_and_display_data_item():
self.create_result_data_item(data_dict)
document_controller.queue_task(create_and_display_data_item
) # must occur on UI thread
self.__acquisition_thread = threading.Thread(
target=run_multi_eels, daemon=True)
self.__acquisition_thread.start()
def start_si_clicked():
if self.__acquisition_running:
self.multi_acquire_controller.cancel()
else:
# Camera must be accessed from the UI thread, so do it here and re-use later
camera = self.camera
self.multi_acquire_controller.stem_controller = self.stem_controller
self.multi_acquire_controller.camera = camera
self.multi_acquire_controller.scan_controller = self.scan_controller
def create_acquisition_handler(multi_acquire_parameters: list,
current_parameters_index: int,
multi_acquire_settings: dict):
document_model = self.document_controller._document_controller.document_model
camera_frame_parameters = camera.get_current_frame_parameters(
)
scan_frame_parameters = self.scan_controller.get_current_frame_parameters(
)
camera_frame_parameters[
'exposure_ms'] = multi_acquire_parameters[
current_parameters_index]['exposure_ms']
camera_frame_parameters[
'processing'] = 'sum_project' if multi_acquire_settings[
'bin_spectra'] else None
scan_frame_parameters.setdefault('scan_id',
str(uuid.uuid4()))
grab_synchronized_info = self.scan_controller.grab_synchronized_get_info(
scan_frame_parameters=scan_frame_parameters,
camera=camera,
camera_frame_parameters=camera_frame_parameters)
camera_data_channel = None
scan_data_channel = None
channels_ready_event = threading.Event()
def create_channels():
nonlocal camera_data_channel, scan_data_channel
camera_data_channel = MultiAcquire.CameraDataChannel(
document_model, camera.display_name,
grab_synchronized_info, multi_acquire_parameters,
multi_acquire_settings, current_parameters_index)
enabled_channels = self.scan_controller.get_enabled_channels(
)
enabled_channel_names = [
self.scan_controller.data_channels[i].name
for i in enabled_channels
]
scan_data_channel = MultiAcquire.ScanDataChannel(
document_model, enabled_channel_names,
grab_synchronized_info, multi_acquire_parameters,
multi_acquire_settings, current_parameters_index)
camera_data_channel.start()
scan_data_channel.start()
channels_ready_event.set()
self.document_controller.queue_task(create_channels)
assert channels_ready_event.wait(10)
si_sequence_behavior = MultiAcquire.SISequenceBehavior(
None, None, None, None)
handler = MultiAcquire.SISequenceAcquisitionHandler(
camera, camera_data_channel, camera_frame_parameters,
self.scan_controller, scan_data_channel,
scan_frame_parameters, si_sequence_behavior)
listener = handler.camera_data_channel.progress_updated_event.listen(
self.multi_acquire_controller.set_progress_counter)
def finish_fn():
listener.close()
def close_channels():
handler.camera_data_channel.stop()
handler.scan_data_channel.stop()
self.document_controller.queue_task(close_channels)
handler.finish_fn = finish_fn
return handler
self.__acquisition_thread = threading.Thread(
target=self.multi_acquire_controller.
start_multi_acquire_spectrum_image,
args=(create_acquisition_handler, ))
self.__acquisition_thread.start()
def settings_button_clicked():
if not self.settings_window_open:
self.settings_window_open = True
self.show_config_box()
def camera_changed(current_item):
if current_item:
self.multi_acquire_controller.settings[
'camera_hardware_source_id'] = current_item.hardware_source_id
def binning_changed(current_item):
if current_item == 'Spectra':
self.multi_acquire_controller.settings['bin_spectra'] = True
self.multi_acquire_controller.settings[
'use_multi_eels_calibration'] = False
elif current_item == 'Images':
self.multi_acquire_controller.settings['bin_spectra'] = False
self.multi_acquire_controller.settings[
'use_multi_eels_calibration'] = False
elif current_item == 'MultiEELS Spectra':
self.multi_acquire_controller.settings['bin_spectra'] = True
self.multi_acquire_controller.settings[
'use_multi_eels_calibration'] = True
camera_choice_row = ui.create_row_widget()
self.binning_choice_combo_box = ui.create_combo_box_widget()
self.binning_choice_combo_box.on_current_item_changed = binning_changed
self.binning_choice_combo_box.items = [
'Spectra', 'Images', 'MultiEELS Spectra'
]
settings_button = CanvasItem.BitmapButtonCanvasItem(
CanvasItem.load_rgba_data_from_bytes(
pkgutil.get_data(__name__, "resources/sliders_icon_24.png"),
"png"))
settings_widget = ui._ui.create_canvas_widget(properties={
"height": 24,
"width": 24
})
settings_widget.canvas_item.add_canvas_item(settings_button)
settings_button.on_button_clicked = settings_button_clicked
self.camera_choice_combo_box = ui.create_combo_box_widget(
item_text_getter=lambda camera: getattr(camera, 'display_name'))
self.camera_choice_combo_box.on_current_item_changed = camera_changed
camera_choice_row.add_spacing(5)
camera_choice_row.add(self.camera_choice_combo_box)
camera_choice_row.add_spacing(10)
camera_choice_row.add(self.binning_choice_combo_box)
camera_choice_row.add_stretch()
camera_choice_row.add_spacing(10)
camera_choice_row._widget.add(settings_widget)
camera_choice_row.add_spacing(10)
self.update_camera_list()
self.update_current_camera()
self.__settings_changed_event_listener = self.multi_acquire_controller.settings.settings_changed_event.listen(
self.update_current_camera)
self.__settings_changed_event_listener_2 = self.multi_acquire_controller.settings.settings_changed_event.listen(
self.update_binning_combo_box)
def component_changed(component, component_types):
if 'camera_hardware_source' in component_types:
self.update_camera_list()
self.__component_registered_event_listener = Registry.listen_component_registered_event(
component_changed)
self.__component_unregistered_event_listener = Registry.listen_component_unregistered_event(
component_changed)
change_parameters_row = ui.create_row_widget()
change_parameters_row.add_spacing(5)
change_parameters_row.add(
ui.create_label_widget('MultiAcquire parameters:'))
change_parameters_row.add_stretch()
change_parameters_row.add_spacing(20)
parameter_description_row = ui.create_row_widget()
parameter_description_row.add_spacing(5)
parameter_description_row.add(ui.create_label_widget('#'))
parameter_description_row.add_spacing(20)
parameter_description_row.add(ui.create_label_widget('Offset'))
parameter_description_row.add_spacing(36)
parameter_description_row.add_stretch()
parameter_description_row.add(ui.create_label_widget('Exposure (ms)'))
parameter_description_row.add_stretch()
parameter_description_row.add(ui.create_label_widget('Frames'))
parameter_description_row.add_spacing(5)
parameter_description_row.add_stretch()
add_remove_parameters_row = ui.create_row_widget()
add_parameters_button = ui.create_push_button_widget('+')
add_parameters_button._widget.set_property('width', 40)
add_parameters_button.on_clicked = self.multi_acquire_controller.add_spectrum
remove_parameters_button = ui.create_push_button_widget('-')
remove_parameters_button._widget.set_property('width', 40)
remove_parameters_button.on_clicked = self.multi_acquire_controller.remove_spectrum
add_remove_parameters_row.add_spacing(5)
add_remove_parameters_row.add(add_parameters_button)
add_remove_parameters_row.add_spacing(5)
add_remove_parameters_row.add(remove_parameters_button)
add_remove_parameters_row.add_spacing(90)
self.progress_bar = ui.create_progress_bar_widget()
add_remove_parameters_row.add(self.progress_bar)
add_remove_parameters_row.add_spacing(5)
time_estimate_row = ui.create_row_widget()
time_estimate_row.add_spacing(6)
self.time_estimate_label = ui.create_label_widget()
time_estimate_row.add(self.time_estimate_label)
time_estimate_row.add_spacing(5)
time_estimate_row.add_stretch()
self.si_time_estimate_label = ui.create_label_widget()
time_estimate_row.add(self.si_time_estimate_label)
time_estimate_row.add_spacing(6)
self.multi_acquire_controller.stem_controller = self.stem_controller
self.multi_acquire_controller.scan_controller = self.scan_controller
def frame_parameters_changed(profile_index, frame_parameters):
self.update_time_estimate()
if self.scan_controller:
self.__scan_frame_parameters_changed_event_listener = self.scan_controller.frame_parameters_changed_event.listen(
frame_parameters_changed)
self.update_camera_list()
self.start_button = ui.create_push_button_widget('Start MultiAcquire')
self.start_button.on_clicked = start_clicked
self.start_si_button = ui.create_push_button_widget(
'Start MultiAcquire spectrum image')
self.start_si_button.on_clicked = start_si_clicked
start_row = ui.create_row_widget()
start_row.add_spacing(5)
start_row.add(self.start_button)
start_row.add_spacing(5)
start_row.add_stretch()
start_row.add(self.start_si_button)
start_row.add_spacing(5)
column = ui.create_column_widget()
column.add_spacing(5)
column.add(camera_choice_row)
column.add_spacing(10)
column.add(change_parameters_row)
column.add_spacing(5)
column.add(parameter_description_row)
column.add_spacing(10)
self.parameter_column = ui.create_column_widget()
for spectrum_parameters in self.multi_acquire_controller.spectrum_parameters:
line = self.create_parameter_line(spectrum_parameters)
self.parameter_column.add(line)
column.add(self.parameter_column)
column.add_spacing(5)
column.add(add_remove_parameters_row)
column.add_spacing(15)
column.add(time_estimate_row)
column.add_spacing(5)
column.add(start_row)
column.add_spacing(10)
column.add_stretch()
# Make sure the binning combo box shows the actual settings
self.update_binning_combo_box()
return column
def _set_up_multi_acquire(self, settings: dict, parameters: list, stem_controller):
multi_acquire = MultiAcquire.MultiAcquireController(stem_controller)
multi_acquire.settings.update(settings)
multi_acquire.spectrum_parameters[:] = parameters
return multi_acquire