Created
June 21, 2020 03:56
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X/Y/Z anisotropic voxel scaling possible with the itkwidgets.view function?
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{ | |
"cells": [ | |
{ | |
"cell_type": "code", | |
"execution_count": 1, | |
"metadata": {}, | |
"outputs": [], | |
"source": [ | |
"import itk\n", | |
"import imageio\n", | |
"\n", | |
"from itkwidgets import view" | |
] | |
}, | |
{ | |
"cell_type": "code", | |
"execution_count": 2, | |
"metadata": {}, | |
"outputs": [], | |
"source": [ | |
"# Reads in metdata into the image data structure\n", | |
"image = imageio.volread('000200.raw.tif')" | |
] | |
}, | |
{ | |
"cell_type": "code", | |
"execution_count": 3, | |
"metadata": {}, | |
"outputs": [], | |
"source": [ | |
"image = itk.image_view_from_array(image)\n", | |
"image.SetSpacing([0.52,0.52,1.98])" | |
] | |
}, | |
{ | |
"cell_type": "code", | |
"execution_count": 4, | |
"metadata": {}, | |
"outputs": [ | |
{ | |
"data": { | |
"application/vnd.jupyter.widget-view+json": { | |
"model_id": "3b9ab9373610414ab099d4c7f721183a", | |
"version_major": 2, | |
"version_minor": 0 | |
}, | |
"text/plain": [ | |
"Viewer(geometries=[], gradient_opacity=0.6, point_sets=[], rendered_image=<itk.itkImagePython.itkImageUS3; pro…" | |
] | |
}, | |
"metadata": {}, | |
"output_type": "display_data" | |
} | |
], | |
"source": [ | |
"view(image, gradient_opacity=0.6, rotate=True, ui_collapsed=True)" | |
] | |
}, | |
{ | |
"cell_type": "code", | |
"execution_count": null, | |
"metadata": {}, | |
"outputs": [], | |
"source": [] | |
} | |
], | |
"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 | |
} |
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