neurotorchmz.plugins.pyimage_j.pyimagej

Functions

on_session_created(e)

Classes

ImageJHandler(session)

Provides a connection between Neurotorch and Fiji/ImageJ using pyimageJ

class neurotorchmz.plugins.pyimage_j.pyimagej.ImageJHandler(session: Session)

Bases: object

Provides a connection between Neurotorch and Fiji/ImageJ using pyimageJ

IJ_Plugin_Duplicator = None

OvalRoi = None

PolygonRoi = None

RM = None

Roi = None

RoiManager = None

_imageJ_ready()

Internal callback triggered when ImageJ is successfully loaded

_loading_error_callback(ex: Exception)

Internal callback on an error when loading ImageJ to reset the start Button

ask_for_imagej_path() → None

export_img(asCopy=False) → None

Export the active image to ImageJ

export_img_diff(asCopy=False) → None

Export the active imageDiff to ImageJ

export_rois_from_roifinder() → None

export_synapses(synapses: list[ISynapse])

Export ISynapses (and their ROIs) to ImageJ

headless: bool = False

ij = None

ij_start_task: Task | None = None

import_image() → Task | None

Load an image from ImageJ into Neurotorch

import_rois() → list[tuple[ISynapseROI, str]] | None

Import ROIs from ImageJ

import_rois_into_roifinder()

menu_locate_installation_click()

Opens a window to locate the installation.

menu_start_imageJ_click() → None

Menu button click for starting Fiji/ImageJ

menu_test_installation_click() → None

on_synapse_tv_context_menu_create(e: SynapseTreeviewContextMenuEvent)

on_window_loaded(e: WindowLoadedEvent) → None

Creates the GUI elements for this plugin. Is only called from WindowLoadedEvent in GUI mode

open_roi_manager() → None

Opens the ROI Manager

property root: tk.Tk | None

start_imageJ(headless: bool = False)

test_for_java() → bool

test_for_maven() → bool

validate_imagej_path() → bool

neurotorchmz.plugins.pyimage_j.pyimagej.on_session_created(e: SessionCreateEvent)