Index

A

Action (class in camacq.control) actions (camacq.control.ActionsRegistry property) (camacq.control.Center attribute) ActionSequence (class in camacq.plugins.automations) ActionsRegistry (class in camacq.control) ActionType (class in camacq.control) add_executor_job() (camacq.control.Center method) add_note() (camacq.exceptions.CamAcqError method) (camacq.exceptions.MissingActionError method) (camacq.exceptions.MissingActionTypeError method) (camacq.exceptions.SampleError method) (camacq.exceptions.TemplateError method)

Api (class in camacq.plugins.api) args (camacq.exceptions.CamAcqError attribute) (camacq.exceptions.MissingActionError attribute) (camacq.exceptions.MissingActionTypeError attribute) (camacq.exceptions.SampleError attribute) (camacq.exceptions.TemplateError attribute) Automation (class in camacq.plugins.automations)

B

bus (camacq.control.Center attribute)

C

call() (camacq.control.ActionsRegistry method) cam_com() (in module camacq.plugins.leica.command) camacq module camacq.bootstrap module camacq.config module camacq.const module camacq.control module camacq.data module camacq.event module camacq.exceptions module camacq.helper module camacq.helper.template module camacq.image module camacq.log module camacq.plugins module camacq.plugins.api module camacq.plugins.automations module camacq.plugins.automations.event module camacq.plugins.leica module camacq.plugins.leica.command module camacq.plugins.leica.helper module camacq.plugins.leica.sample module camacq.plugins.rename_image module camacq.plugins.sample module camacq.util module CamAcqError CamAcqStartEvent (class in camacq.control) CamAcqStopEvent (class in camacq.control) camstart_com() (in module camacq.plugins.leica.command)

camstop_com() (in module camacq.plugins.leica.command) center (camacq.plugins.leica.sample.LeicaSample attribute) (camacq.plugins.sample.Sample attribute) Center (class in camacq.control) change_event (camacq.plugins.leica.sample.Channel property) (camacq.plugins.leica.sample.Field property) (camacq.plugins.leica.sample.LeicaSample property) (camacq.plugins.leica.sample.Plate property) (camacq.plugins.leica.sample.Well property) (camacq.plugins.leica.sample.ZSlice property) (camacq.plugins.sample.Image property) (camacq.plugins.sample.ImageContainer property) (camacq.plugins.sample.Sample property) Channel (class in camacq.plugins.leica.sample) channel_id (camacq.plugins.api.ImageEvent property) (camacq.plugins.leica.LeicaImageEvent property) (camacq.plugins.leica.sample.Channel attribute) (camacq.plugins.leica.sample.ChannelEvent property) channel_name (camacq.plugins.leica.sample.ChannelEvent property) ChannelEvent (class in camacq.plugins.leica.sample) check_path() (in module camacq.log) clear() (camacq.control.ActionType method) (camacq.plugins.sample.Samples method) (camacq.util.dotdict method) command (camacq.plugins.api.CommandEvent property) (camacq.plugins.api.StartCommandEvent property) (camacq.plugins.api.StopCommandEvent property) (camacq.plugins.leica.LeicaCommandEvent property) (camacq.plugins.leica.LeicaStartCommandEvent property) (camacq.plugins.leica.LeicaStopCommandEvent property) CommandEvent (class in camacq.plugins.api) container (camacq.plugins.leica.sample.ChannelEvent property) (camacq.plugins.leica.sample.FieldEvent property) (camacq.plugins.leica.sample.LeicaSampleEvent property) (camacq.plugins.leica.sample.PlateEvent property) (camacq.plugins.leica.sample.WellEvent property) (camacq.plugins.leica.sample.ZSliceEvent property) (camacq.plugins.sample.SampleEvent property) (camacq.plugins.sample.SampleImageSetEvent property) container_name (camacq.plugins.leica.sample.ChannelEvent property) (camacq.plugins.leica.sample.FieldEvent property) (camacq.plugins.leica.sample.LeicaSampleEvent property) (camacq.plugins.leica.sample.PlateEvent property) (camacq.plugins.leica.sample.WellEvent property) (camacq.plugins.leica.sample.ZSliceEvent property) (camacq.plugins.sample.SampleEvent property) (camacq.plugins.sample.SampleImageSetEvent property) copy() (camacq.control.ActionType method) (camacq.plugins.sample.Samples method) (camacq.util.dotdict method) create_default_config() (in module camacq.config) create_task() (camacq.control.Center method)

D

data (camacq.control.CamAcqStartEvent attribute) (camacq.control.CamAcqStopEvent attribute) (camacq.control.Center attribute) (camacq.event.Event attribute) (camacq.image.ImageData property) (camacq.plugins.api.CommandEvent attribute) (camacq.plugins.api.ImageEvent attribute) (camacq.plugins.api.StartCommandEvent attribute) (camacq.plugins.api.StopCommandEvent attribute) (camacq.plugins.leica.LeicaCommandEvent attribute) (camacq.plugins.leica.LeicaImageEvent attribute) (camacq.plugins.leica.LeicaStartCommandEvent attribute) (camacq.plugins.leica.LeicaStopCommandEvent attribute) (camacq.plugins.leica.sample.ChannelEvent attribute) (camacq.plugins.leica.sample.FieldEvent attribute) (camacq.plugins.leica.sample.LeicaSample attribute) (camacq.plugins.leica.sample.LeicaSampleEvent attribute) (camacq.plugins.leica.sample.PlateEvent attribute) (camacq.plugins.leica.sample.WellEvent attribute) (camacq.plugins.leica.sample.ZSliceEvent attribute) (camacq.plugins.sample.Sample attribute) (camacq.plugins.sample.SampleEvent attribute) (camacq.plugins.sample.SampleImageSetEvent attribute)

del_com() (in module camacq.plugins.leica.command) delay() (camacq.plugins.automations.ActionSequence method) disable() (camacq.plugins.automations.Automation method) dotdict (class in camacq.util)

E

enable() (camacq.plugins.automations.Automation method) enable_com() (in module camacq.plugins.leica.command) enable_log() (in module camacq.log) end() (camacq.control.Center method) ensure_config_exists() (in module camacq.config) ensure_dict() (in module camacq.helper) Event (class in camacq.event) event_type (camacq.control.CamAcqStartEvent attribute) (camacq.control.CamAcqStopEvent attribute) (camacq.event.Event attribute) (camacq.plugins.api.CommandEvent attribute) (camacq.plugins.api.ImageEvent attribute) (camacq.plugins.api.StartCommandEvent attribute) (camacq.plugins.api.StopCommandEvent attribute) (camacq.plugins.leica.LeicaCommandEvent attribute) (camacq.plugins.leica.LeicaImageEvent attribute) (camacq.plugins.leica.LeicaStartCommandEvent attribute) (camacq.plugins.leica.LeicaStopCommandEvent attribute) (camacq.plugins.leica.sample.ChannelEvent attribute) (camacq.plugins.leica.sample.FieldEvent attribute) (camacq.plugins.leica.sample.LeicaSampleEvent attribute) (camacq.plugins.leica.sample.PlateEvent attribute) (camacq.plugins.leica.sample.WellEvent attribute) (camacq.plugins.leica.sample.ZSliceEvent attribute) (camacq.plugins.sample.SampleEvent attribute) (camacq.plugins.sample.SampleImageSetEvent attribute)

event_types (camacq.event.EventBus property) EventBus (class in camacq.event) exit_code (camacq.control.CamAcqStopEvent property)

F

Field (class in camacq.plugins.leica.sample) field_img_ok (camacq.plugins.leica.sample.FieldEvent property) field_x (camacq.plugins.api.ImageEvent property) (camacq.plugins.leica.LeicaImageEvent property) (camacq.plugins.leica.sample.Field attribute) (camacq.plugins.leica.sample.FieldEvent property) field_y (camacq.plugins.api.ImageEvent property) (camacq.plugins.leica.LeicaImageEvent property) (camacq.plugins.leica.sample.Field attribute) (camacq.plugins.leica.sample.FieldEvent property)

FieldEvent (class in camacq.plugins.leica.sample) find_config_file() (in module camacq.config) find_image_path() (in module camacq.plugins.leica.helper) fromkeys() (camacq.control.ActionType class method) (camacq.plugins.sample.Samples class method) (camacq.util.dotdict class method)

G

gain_com() (in module camacq.plugins.leica.command) get() (camacq.control.ActionType method) (camacq.plugins.sample.Samples method) (camacq.util.dotdict method) get_default_config_dir() (in module camacq.config) get_env() (in module camacq.helper.template) get_field() (in module camacq.plugins.leica.helper)

get_imgs() (in module camacq.plugins.leica.helper) get_matched_samples() (in module camacq.plugins.sample) get_module() (in module camacq.helper) get_plugins() (in module camacq.plugins) get_sample() (camacq.plugins.leica.sample.LeicaSample method) (camacq.plugins.sample.Sample method) get_well() (in module camacq.plugins.leica.helper)

H

handle_trigger() (in module camacq.plugins.automations.event)

has_at_least_one_key() (in module camacq.helper) histogram (camacq.image.ImageData property)

I

Image (class in camacq.plugins.sample) image_event_type (camacq.plugins.leica.sample.LeicaSample property) (camacq.plugins.sample.Sample property) ImageContainer (class in camacq.plugins.sample) ImageData (class in camacq.image) ImageEvent (class in camacq.plugins.api) images (camacq.plugins.leica.sample.Channel property) (camacq.plugins.leica.sample.ChannelEvent property) (camacq.plugins.leica.sample.Field property) (camacq.plugins.leica.sample.FieldEvent property) (camacq.plugins.leica.sample.LeicaSample property) (camacq.plugins.leica.sample.LeicaSampleEvent property) (camacq.plugins.leica.sample.Plate property) (camacq.plugins.leica.sample.PlateEvent property) (camacq.plugins.leica.sample.Well property) (camacq.plugins.leica.sample.WellEvent property) (camacq.plugins.leica.sample.ZSlice property) (camacq.plugins.leica.sample.ZSliceEvent property) (camacq.plugins.sample.Image property) (camacq.plugins.sample.ImageContainer property) (camacq.plugins.sample.Sample property) (camacq.plugins.sample.SampleEvent property) (camacq.plugins.sample.SampleImageSetEvent property)

items() (camacq.control.ActionType method) (camacq.plugins.sample.Samples method) (camacq.util.dotdict method)

J

job_id (camacq.plugins.leica.LeicaImageEvent property)

K

keys() (camacq.control.ActionType method) (camacq.plugins.sample.Samples method) (camacq.util.dotdict method)

L

LeicaApi (class in camacq.plugins.leica) LeicaCommandEvent (class in camacq.plugins.leica) LeicaImageEvent (class in camacq.plugins.leica) LeicaSample (class in camacq.plugins.leica.sample) LeicaSampleEvent (class in camacq.plugins.leica.sample)

LeicaStartCommandEvent (class in camacq.plugins.leica) LeicaStopCommandEvent (class in camacq.plugins.leica) load_config_file() (in module camacq.config) loop (camacq.control.Center attribute) loop_exception_handler() (in module camacq.control)

M

make_checker() (in module camacq.plugins.automations) make_proj() (in module camacq.image) make_template() (in module camacq.helper.template) match_event() (in module camacq.event) metadata (camacq.image.ImageData property) MissingActionError MissingActionTypeError module camacq camacq.bootstrap camacq.config camacq.const camacq.control camacq.data camacq.event camacq.exceptions camacq.helper camacq.helper.template camacq.image camacq.log camacq.plugins camacq.plugins.api camacq.plugins.automations camacq.plugins.automations.event camacq.plugins.leica camacq.plugins.leica.command camacq.plugins.leica.helper camacq.plugins.leica.sample camacq.plugins.rename_image camacq.plugins.sample camacq.util

N

name (camacq.plugins.api.Api property) (camacq.plugins.leica.LeicaApi property) (camacq.plugins.leica.sample.Channel property) (camacq.plugins.leica.sample.Field property) (camacq.plugins.leica.sample.LeicaSample property) (camacq.plugins.leica.sample.Plate property) (camacq.plugins.leica.sample.Well property) (camacq.plugins.leica.sample.ZSlice property) (camacq.plugins.sample.Image property) (camacq.plugins.sample.ImageContainer property) (camacq.plugins.sample.Sample property)

next_well_xy() (in module camacq.plugins.leica.sample) notify() (camacq.event.EventBus method)

O

on_image() (camacq.plugins.leica.sample.LeicaSample method) (camacq.plugins.sample.Sample method)

P

path (camacq.image.ImageData attribute) (camacq.plugins.api.ImageEvent property) (camacq.plugins.leica.LeicaImageEvent property) (camacq.plugins.sample.Image property) Plate (class in camacq.plugins.leica.sample) plate_name (camacq.plugins.api.ImageEvent property) (camacq.plugins.leica.LeicaImageEvent property) (camacq.plugins.leica.sample.ChannelEvent property) (camacq.plugins.leica.sample.FieldEvent property) (camacq.plugins.leica.sample.Plate attribute) (camacq.plugins.leica.sample.PlateEvent property) (camacq.plugins.leica.sample.WellEvent property) (camacq.plugins.leica.sample.ZSliceEvent property)

PlateEvent (class in camacq.plugins.leica.sample) pop() (camacq.control.ActionType method) (camacq.plugins.sample.Samples method) (camacq.util.dotdict method) popitem() (camacq.control.ActionType method) (camacq.plugins.sample.Samples method) (camacq.util.dotdict method)

R

read_image() (in module camacq.image) receive() (camacq.plugins.leica.LeicaApi method) register() (camacq.control.ActionsRegistry method) (camacq.event.EventBus method) register_api() (in module camacq.plugins.api)

register_sample() (in module camacq.plugins.sample) register_signals() (in module camacq.helper) rename_image() (in module camacq.plugins.rename_image) render() (camacq.plugins.automations.TemplateAction method) render_template() (in module camacq.helper.template)

S

Sample (class in camacq.plugins.sample) SampleError SampleEvent (class in camacq.plugins.sample) SampleImageSetEvent (class in camacq.plugins.sample) samples (camacq.control.Center attribute) Samples (class in camacq.plugins.sample) save() (camacq.image.ImageData method) save_image() (in module camacq.image) send() (camacq.plugins.api.Api method) (camacq.plugins.leica.LeicaApi method) send_many() (camacq.plugins.api.Api method) (camacq.plugins.leica.LeicaApi method) set_sample() (camacq.plugins.leica.sample.LeicaSample method) (camacq.plugins.sample.Sample method) set_sample_schema (camacq.plugins.leica.sample.LeicaSample property) (camacq.plugins.sample.Sample property) setdefault() (camacq.control.ActionType method) (camacq.plugins.sample.Samples method) (camacq.util.dotdict method)

setup_dict() (in module camacq.bootstrap) setup_file() (in module camacq.bootstrap) setup_module() (in module camacq.plugins) (in module camacq.plugins.api) (in module camacq.plugins.automations) (in module camacq.plugins.leica) (in module camacq.plugins.leica.sample) (in module camacq.plugins.rename_image) (in module camacq.plugins.sample) setup_one_module() (in module camacq.helper) start() (camacq.control.Center method) (in module camacq.plugins.leica.command) start_imaging() (camacq.plugins.api.Api method) (camacq.plugins.leica.LeicaApi method) start_listen() (camacq.plugins.leica.LeicaApi method) StartCommandEvent (class in camacq.plugins.api) stop() (in module camacq.plugins.leica.command) stop_imaging() (camacq.plugins.api.Api method) (camacq.plugins.leica.LeicaApi method) StopCommandEvent (class in camacq.plugins.api)

T

template_check() (in module camacq.plugins.automations) template_next_well_x() (in module camacq.helper.template) template_next_well_xy() (in module camacq.helper.template)

template_next_well_y() (in module camacq.helper.template) TemplateAction (class in camacq.plugins.automations) TemplateError trigger() (camacq.plugins.automations.Automation method)

U

update() (camacq.control.ActionType method) (camacq.plugins.sample.Samples method) (camacq.util.dotdict method)

V

validate_commands() (in module camacq.plugins.api) values (camacq.plugins.leica.sample.Channel property) (camacq.plugins.leica.sample.ChannelEvent property) (camacq.plugins.leica.sample.Field property) (camacq.plugins.leica.sample.FieldEvent property) (camacq.plugins.leica.sample.LeicaSample property) (camacq.plugins.leica.sample.LeicaSampleEvent property) (camacq.plugins.leica.sample.Plate property) (camacq.plugins.leica.sample.PlateEvent property) (camacq.plugins.leica.sample.Well property) (camacq.plugins.leica.sample.WellEvent property) (camacq.plugins.leica.sample.ZSlice property) (camacq.plugins.leica.sample.ZSliceEvent property) (camacq.plugins.sample.Image property) (camacq.plugins.sample.ImageContainer property) (camacq.plugins.sample.Sample property) (camacq.plugins.sample.SampleEvent property) (camacq.plugins.sample.SampleImageSetEvent property)

values() (camacq.control.ActionType method) (camacq.plugins.sample.Samples method) (camacq.util.dotdict method)

W

wait_for() (camacq.control.Center method) Well (class in camacq.plugins.leica.sample) well_img_ok (camacq.plugins.leica.sample.ChannelEvent property) (camacq.plugins.leica.sample.FieldEvent property) (camacq.plugins.leica.sample.WellEvent property) (camacq.plugins.leica.sample.ZSliceEvent property) well_x (camacq.plugins.api.ImageEvent property) (camacq.plugins.leica.LeicaImageEvent property) (camacq.plugins.leica.sample.ChannelEvent property) (camacq.plugins.leica.sample.FieldEvent property) (camacq.plugins.leica.sample.Well attribute) (camacq.plugins.leica.sample.WellEvent property) (camacq.plugins.leica.sample.ZSliceEvent property)

well_y (camacq.plugins.api.ImageEvent property) (camacq.plugins.leica.LeicaImageEvent property) (camacq.plugins.leica.sample.ChannelEvent property) (camacq.plugins.leica.sample.FieldEvent property) (camacq.plugins.leica.sample.Well attribute) (camacq.plugins.leica.sample.WellEvent property) (camacq.plugins.leica.sample.ZSliceEvent property) WellEvent (class in camacq.plugins.leica.sample) with_traceback() (camacq.exceptions.CamAcqError method) (camacq.exceptions.MissingActionError method) (camacq.exceptions.MissingActionTypeError method) (camacq.exceptions.SampleError method) (camacq.exceptions.TemplateError method)

Z

z_slice_id (camacq.plugins.api.ImageEvent property) (camacq.plugins.leica.LeicaImageEvent property) (camacq.plugins.leica.sample.ZSlice attribute) (camacq.plugins.leica.sample.ZSliceEvent property)

ZSlice (class in camacq.plugins.leica.sample) ZSliceEvent (class in camacq.plugins.leica.sample)