-
Notifications
You must be signed in to change notification settings - Fork 84
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
Compare two images by visualizing them side by side. Visualization traits, e.g. the view mode, camera, etc., are linked between the viewers. Optional trait linking can be enabled in widget's user interface. Closes #86 Co-authored-by: Wei Ouyang <[email protected]> Co-authored-by: Matt McCormick <[email protected]>
- Loading branch information
3 people
committed
Jan 15, 2020
1 parent
9249ab0
commit e3cab40
Showing
5 changed files
with
183 additions
and
2 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,106 @@ | ||
| { | ||
| "cells": [ | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": null, | ||
| "metadata": {}, | ||
| "outputs": [], | ||
| "source": [ | ||
| "# Install dependencies for this example\n", | ||
| "# Note: This does not include itkwidgets, itself\n", | ||
| "import sys\n", | ||
| "!{sys.executable} -m pip install itk-io" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": 1, | ||
| "metadata": {}, | ||
| "outputs": [], | ||
| "source": [ | ||
| "from urllib.request import urlretrieve\n", | ||
| "import os\n", | ||
| "\n", | ||
| "import itk\n", | ||
| "\n", | ||
| "from itkwidgets import compare, view" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": 2, | ||
| "metadata": {}, | ||
| "outputs": [], | ||
| "source": [ | ||
| "# Download data\n", | ||
| "file_name = 'engine.nrrd'\n", | ||
| "if not os.path.exists(file_name):\n", | ||
| " url = 'https://data.kitware.com/api/v1/file/5b843d468d777f43cc8d4f6b/download'\n", | ||
| " urlretrieve(url, file_name)" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": 3, | ||
| "metadata": {}, | ||
| "outputs": [], | ||
| "source": [ | ||
| "image1 = itk.imread(file_name, itk.F)" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": 4, | ||
| "metadata": {}, | ||
| "outputs": [], | ||
| "source": [ | ||
| "image2 = itk.gradient_magnitude_image_filter(image1)" | ||
| ] | ||
| }, | ||
| { | ||
| "cell_type": "code", | ||
| "execution_count": 5, | ||
| "metadata": {}, | ||
| "outputs": [ | ||
| { | ||
| "data": { | ||
| "application/vnd.jupyter.widget-view+json": { | ||
| "model_id": "0e78848274c34179be91807943316ae9", | ||
| "version_major": 2, | ||
| "version_minor": 0 | ||
| }, | ||
| "text/plain": [ | ||
| "AppLayout(children=(HBox(children=(Label(value='Link:'), Checkbox(value=True, description='cmap'), Checkbox(va…" | ||
| ] | ||
| }, | ||
| "metadata": {}, | ||
| "output_type": "display_data" | ||
| } | ||
| ], | ||
| "source": [ | ||
| "compare(image1, image2, link_cmap=True)" | ||
| ] | ||
| } | ||
| ], | ||
| "metadata": { | ||
| "kernelspec": { | ||
| "display_name": "Python 3", | ||
| "language": "python", | ||
| "name": "python3" | ||
| }, | ||
| "language_info": { | ||
| "codemirror_mode": { | ||
| "name": "ipython", | ||
| "version": 3 | ||
| }, | ||
| "file_extension": ".py", | ||
| "mimetype": "text/x-python", | ||
| "name": "python", | ||
| "nbconvert_exporter": "python", | ||
| "pygments_lexer": "ipython3", | ||
| "version": "3.7.6" | ||
| } | ||
| }, | ||
| "nbformat": 4, | ||
| "nbformat_minor": 2 | ||
| } |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,69 @@ | ||
| import numpy as np | ||
| import ipywidgets as widgets | ||
| from itkwidgets.widget_viewer import Viewer | ||
| from traitlets import CBool | ||
| import IPython | ||
| from itkwidgets._transform_types import to_itk_image | ||
|
|
||
|
|
||
| def compare(image1, image2, | ||
| link_cmap=False, link_gradient_opacity=False, | ||
| **viewer_kwargs): | ||
| """Compare two images by visualizing them side by side. | ||
| Visualization traits, e.g. the view mode, camera, etc., are linked | ||
| between the viewers. Optional trait linking can be enabled in widget's | ||
| user interface. | ||
| """ | ||
|
|
||
| viewer1 = Viewer(image=image1, **viewer_kwargs) | ||
| # Collapse the second viewer's user interface by default. | ||
| if 'ui_collapsed' not in viewer_kwargs: | ||
| viewer_kwargs['ui_collapsed'] = True | ||
| viewer2 = Viewer(image=image2, **viewer_kwargs) | ||
|
|
||
|
|
||
| widgets.jslink((viewer1, 'mode'), (viewer2, 'mode')) | ||
| widgets.jslink((viewer1, 'camera'), (viewer2, 'camera')) | ||
| widgets.jslink((viewer1, 'roi'), (viewer2, 'roi')) | ||
| widgets.jslink((viewer1, 'rotate'), (viewer2, 'rotate')) | ||
| widgets.jslink((viewer1, 'annotations'), (viewer2, 'annotations')) | ||
| widgets.jslink((viewer1, 'x_slice'), (viewer2, 'x_slice')) | ||
| widgets.jslink((viewer1, 'y_slice'), (viewer2, 'y_slice')) | ||
| widgets.jslink((viewer1, 'z_slice'), (viewer2, 'z_slice')) | ||
|
|
||
| link_widgets = [] | ||
| link_widgets.append(widgets.Label('Link:')) | ||
|
|
||
| class UpdateLink(object): | ||
| def __init__(self, enable, name): | ||
| self.link = None | ||
| self.name = name | ||
| if enable: | ||
| self.link = widgets.jslink((viewer1, name), (viewer2, name)) | ||
|
|
||
| def __call__(self, change): | ||
| if change.new: | ||
| self.link = widgets.jslink((viewer1, self.name), (viewer2, self.name)) | ||
| else: | ||
| self.link.unlink() | ||
|
|
||
| link_cmap_widget = widgets.Checkbox(description='cmap', value=link_cmap) | ||
| update_cmap_link = UpdateLink(link_cmap, 'cmap') | ||
| link_cmap_widget.observe(update_cmap_link, 'value') | ||
| link_widgets.append(link_cmap_widget) | ||
|
|
||
| link_gradient_opacity_widget = widgets.Checkbox(description='gradient_opacity', value=link_gradient_opacity) | ||
| update_gradient_opacity_link = UpdateLink(link_gradient_opacity, 'gradient_opacity') | ||
| link_gradient_opacity_widget.observe(update_gradient_opacity_link, 'value') | ||
| link_widgets.append(link_gradient_opacity_widget) | ||
|
|
||
| link_widget = widgets.HBox(link_widgets) | ||
|
|
||
| widget = widgets.AppLayout(header=None, | ||
| left_sidebar=viewer1, | ||
| center=None, | ||
| right_sidebar=viewer2, | ||
| footer=link_widget, | ||
| pane_heights=[1, 6, 1]) | ||
| return widget |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters