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Getting Started

  • Computer Considerations
  • Computer Power Configuration
  • Software Installation
  • Launching Navigate
  • Configuring Navigate
  • Acquiring Data
  • Smart Acquisition Routines

User Guide

  • Supported Hardware
  • Supported File Formats
  • User Interface Walkthrough
  • Setting Up a Microscope
  • Acquiring Data
  • Case Studies

Development

  • Contributing Guidelines
  • Developer Install
  • Software Architecture
  • Developer Architecture Concepts
  • Feature Container
  • REST API
  • Plugin Architecture
  • Adding New Hardware

Troubleshooting & Known Issues

  • Troubleshooting
  • Known Issues

Plugins

  • navigate Plugin Template
  • navigate Confocal Projection
  • navigate at Scale
  • navigate Constant Velocity Acquisition
  • navigate MMCore
  • navigate ilastik Server
  • navigate Photoactivation

Reference

  • Implemented Microscopes
  • Software API
    • navigate.config
    • navigate.controller
      • navigate.controller.configuration_controller
      • navigate.controller.configurator
      • navigate.controller.controller
      • navigate.controller.sub_controllers
        • navigate.controller.sub_controllers.acquire_bar
        • navigate.controller.sub_controllers.adaptive_optics
        • navigate.controller.sub_controllers.autofocus
        • navigate.controller.sub_controllers.camera_map
        • navigate.controller.sub_controllers.camera_settings
        • navigate.controller.sub_controllers.camera_view
        • navigate.controller.sub_controllers.channels_settings
        • navigate.controller.sub_controllers.channels_tab
        • navigate.controller.sub_controllers.diagnostics_popup
        • navigate.controller.sub_controllers.feature_advanced_setting
        • navigate.controller.sub_controllers.features_popup
        • navigate.controller.sub_controllers.gui
        • navigate.controller.sub_controllers.histogram
        • navigate.controller.sub_controllers.ilastik
        • navigate.controller.sub_controllers.keystrokes
        • navigate.controller.sub_controllers.menus
        • navigate.controller.sub_controllers.microscope_popup
        • navigate.controller.sub_controllers.multiposition
        • navigate.controller.sub_controllers.plugins
        • navigate.controller.sub_controllers.stages
        • navigate.controller.sub_controllers.stages_advanced
        • navigate.controller.sub_controllers.tiling
        • navigate.controller.sub_controllers.waveform_popup
        • navigate.controller.sub_controllers.waveform_tab
      • navigate.controller.thread_pool
    • navigate.controller.configurator
    • navigate.log_files
    • navigate.model
    • navigate.tools
    • navigate.view
navigate
  • Software API
  • navigate.controller
  • navigate.controller.sub_controllers
  • navigate.controller.sub_controllers.microscope_popup
  • navigate.controller.sub_controllers.microscope_popup.MicroscopePopupController
  • View page source

navigate.controller.sub_controllers.microscope_popup.MicroscopePopupController

class navigate.controller.sub_controllers.microscope_popup.MicroscopePopupController(view, parent_controller, microscope_info)

Bases: GUIController

Controller for the microscope setting popup window.

__init__(view, parent_controller, microscope_info)

Initialize the MicroscopePopupController.

Parameters:
  • view (object) – GUI element containing widgets and variables to control. Likely tk.Toplevel-derived.

  • parent_controller (Navigate_controller) – The main controller.

  • microscope_info (dict) – A dictionary containing the information of the microscopes.

Methods

__init__(view, parent_controller, ...)

Initialize the MicroscopePopupController.

confirm_microscope_setting()

Confirm the microscope settings.

execute(command, *args)

This function is called when a command is passed from a child process.

exit_func()

Close the window and delete this controller.

initialize()

This function is called when the controller is initialized

register_event_listener(event_name, ...)

Register event listener in the parent_controller

set_experiment_values()

Sets values of widgets based on experiment setting

show_verbose_info(*info)

Prints verbose information to the console

showup()

This function will let the popup window show in front.

update_experiment_values(*args)

Collects all the values of widgets

update_microscope_mode(microscope_name)

Update the microscope mode.

Attributes

custom_events

Custom events for the controller

view

The popup window.

widgets

A dictionary containing the widgets.

variables

A dictionary containing the variables.

buttons

A dictionary containing the buttons.

microscope_info

A dictionary containing the microscope information.

primary_microscope

The name of the primary microscope.

confirm_microscope_setting()

Confirm the microscope settings.

execute(command, *args)

This function is called when a command is passed from a child process.

Parameters:
  • command (str) – command name

  • args (tuple) – command arguments

exit_func()

Close the window and delete this controller.

initialize()

This function is called when the controller is initialized

This function initializes GUI based on configuration setting parameter: configuration_controller set range value for entry or spinbox widgets; add values to combobox get other necessary information for configuration.yml

register_event_listener(event_name, event_handler)

Register event listener in the parent_controller

Parameters:
  • event_name (str) – event name

  • event_handler (function) – event handler

set_experiment_values()

Sets values of widgets based on experiment setting

setting_dict is a dictionary

show_verbose_info(*info)

Prints verbose information to the console

Parameters:

info (tuple) – information to be printed

showup()

This function will let the popup window show in front.

update_experiment_values(*args)

Collects all the values of widgets

setting_dict is a reference of experiment dictionary update the dictionary directly

update_microscope_mode(microscope_name)

Update the microscope mode.

Parameters:

microscope_name (str) – The name of the microscope.

Returns:

A function to update the microscope mode.

Return type:

func

buttons

A dictionary containing the buttons.

Type:

dict

property custom_events

Custom events for the controller

microscope_info

A dictionary containing the microscope information.

Type:

dict

parent_controller

parent controller

Type:

Controller

primary_microscope

The name of the primary microscope.

Type:

str

variables

A dictionary containing the variables.

Type:

dict

view

The popup window.

Type:

tk.Toplevel-derived

widgets

A dictionary containing the widgets.

Type:

dict

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