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GenevieveBuckley/bugreport_fastplotlib_flipping.ipynb

Created July 22, 2023 00:35
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Bug report, unexpected behaviour in the fastplotlib library (flipping image orientations)
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bugreport_fastplotlib_flipping.ipynb
{
"cells": [
{
"cell_type": "markdown",
"id": "8028b02c-11bd-46d7-af60-c9007feda5e9",
"metadata": {},
"source": [
"# fastplotlib bug report"
]
},
{
"cell_type": "code",
"execution_count": 62,
"id": "ebfb2dfd-e9b0-46ee-a3bb-93b439b8265b",
"metadata": {},
"outputs": [
{
"data": {
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"version_major": 2,
"version_minor": 0
},
"text/plain": [
"RFBOutputContext()"
]
},
"metadata": {},
"output_type": "display_data"
},
{
"data": {
"application/vnd.jupyter.widget-view+json": {
"model_id": "1c352a1e14f746588cb26ae67182662c",
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"version_minor": 0
},
"text/plain": [
"VBox(children=(JupyterWgpuCanvas(), HBox(children=(Button(icon='expand-arrows-alt', layout=Layout(width='auto'…"
]
},
"execution_count": 62,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"import fastplotlib as fpl\n",
"import imageio.v3 as iio\n",
"\n",
"# create a `Plot` instance\n",
"plot = fpl.Plot()\n",
"\n",
"# get a grayscale image\n",
"data = iio.imread(\"imageio:camera.png\")\n",
"\n",
"# plot the image data\n",
"image_graphic = plot.add_image(data=data, name=\"sample-image\")\n",
"\n",
"# show the plot\n",
"plot.show()\n"
]
},
{
"cell_type": "code",
"execution_count": 15,
"id": "13b90af7-119e-4fa2-840c-301089236fdf",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[1. 1. 1.]\n",
"1.0\n",
"1.0\n",
"1.0\n"
]
}
],
"source": [
"print(plot.camera.world.scale)\n",
"print(plot.camera.world.scale_x)\n",
"print(plot.camera.world.scale_y)\n",
"print(plot.camera.world.scale_z)"
]
},
{
"cell_type": "markdown",
"id": "0d120cd2-14ef-4852-9d51-b34ae9492575",
"metadata": {},
"source": [
"## Flip image on x-axis\n",
"\n",
"Results are as expected"
]
},
{
"cell_type": "code",
"execution_count": 16,
"id": "53aa8afb-2145-4dab-a398-52cdffcc1e79",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[-1. 1. 1.]\n",
"-1.0\n",
"1.0\n",
"1.0\n"
]
}
],
"source": [
"# flip image\n",
"plot.camera.world.scale_x *= -1\n",
"\n",
"print(plot.camera.world.scale)\n",
"print(plot.camera.world.scale_x)\n",
"print(plot.camera.world.scale_y)\n",
"print(plot.camera.world.scale_z)"
]
},
{
"cell_type": "code",
"execution_count": 17,
"id": "7d7f7f55-61c1-4153-9f3d-770821623bbc",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[1. 1. 1.]\n",
"1.0\n",
"1.0\n",
"1.0\n"
]
}
],
"source": [
"# flip image back to starting orientation\n",
"plot.camera.world.scale_x *= -1\n",
"\n",
"print(plot.camera.world.scale)\n",
"print(plot.camera.world.scale_x)\n",
"print(plot.camera.world.scale_y)\n",
"print(plot.camera.world.scale_z)"
]
},
{
"cell_type": "markdown",
"id": "4a123639-e8aa-46ae-813d-18583ab50d4c",
"metadata": {},
"source": [
"## Flip image on y-axis\n",
"\n",
"Not as expected"
]
},
{
"cell_type": "code",
"execution_count": 18,
"id": "45e05f2e-c7f1-4814-8c91-580c922896cb",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[-1. 1. 1.]\n",
"-1.0\n",
"1.0\n",
"1.0\n"
]
}
],
"source": [
"# flip image\n",
"plot.camera.world.scale_y *= -1\n",
"\n",
"print(plot.camera.world.scale)\n",
"print(plot.camera.world.scale_x)\n",
"print(plot.camera.world.scale_y)\n",
"print(plot.camera.world.scale_z)"
]
},
{
"cell_type": "markdown",
"id": "97153696-0c8b-401e-ad76-a6b0a59890df",
"metadata": {},
"source": [
"... what is happening here? We flipped the y axis, but the change is showing up in `scale_x`, not `scale_y`"
]
},
{
"cell_type": "code",
"execution_count": 19,
"id": "8c560bef-9ea6-414b-aa8e-f2c6beca4b2b",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[1. 1. 1.]\n",
"1.0\n",
"1.0\n",
"1.0\n"
]
}
],
"source": [
"# flip image back to starting orientation\n",
"plot.camera.world.scale_y *= -1\n",
"\n",
"print(plot.camera.world.scale)\n",
"print(plot.camera.world.scale_x)\n",
"print(plot.camera.world.scale_y)\n",
"print(plot.camera.world.scale_z)"
]
},
{
"cell_type": "markdown",
"id": "a87a1350-9583-48ac-b254-162cd6f757c7",
"metadata": {},
"source": [
"## Flip image on z-axis\n",
"\n",
"Not as expected"
]
},
{
"cell_type": "code",
"execution_count": 7,
"id": "745dde88-753a-4a9e-b7b1-a3e629c5baed",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[-1. 1. 1.]\n",
"-1.0\n",
"1.0\n",
"1.0\n"
]
}
],
"source": [
"# flip image\n",
"plot.camera.world.scale_z *= -1\n",
"\n",
"print(plot.camera.world.scale)\n",
"print(plot.camera.world.scale_x)\n",
"print(plot.camera.world.scale_y)\n",
"print(plot.camera.world.scale_z)"
]
},
{
"cell_type": "markdown",
"id": "0d713c82-fb65-4ef3-82da-3ce74d076cdb",
"metadata": {},
"source": [
"Nothing appears to happen to the image, but that part we expect because the actual image we passed to the fastplotlib graphic is 2D.\n",
"\n",
"Not as expected, again as before, even though we are updating in z, the change is being reported in `scale_x`."
]
},
{
"cell_type": "code",
"execution_count": 8,
"id": "4b1b8d92-8fc0-4e24-8ca3-66aaf5783279",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[1. 1. 1.]\n",
"1.0\n",
"1.0\n",
"1.0\n"
]
}
],
"source": [
"# flip image back to starting orientation\n",
"plot.camera.world.scale_z *= -1\n",
"\n",
"print(plot.camera.world.scale)\n",
"print(plot.camera.world.scale_x)\n",
"print(plot.camera.world.scale_y)\n",
"print(plot.camera.world.scale_z)"
]
},
{
"cell_type": "markdown",
"id": "5be91a5a-88e3-490b-82d2-27e546fc51e6",
"metadata": {},
"source": [
"## Even more confusing...\n",
"\n",
"Things get even more confusing when I start changing the values in the `scale` list.\n",
"\n",
"The displayed image can flip diagonnaly in x & y, the second time you change the values in `scale`."
]
},
{
"cell_type": "code",
"execution_count": 65,
"id": "ad2697d5-60d0-4def-aba6-4370a95f18a8",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[1. 1. 1.]\n",
"1.0\n",
"1.0\n",
"1.0\n"
]
}
],
"source": [
"# Reset view in display\n",
"plot.camera.world.scale = [1, 1, 1]\n",
"\n",
"print(plot.camera.world.scale)\n",
"print(plot.camera.world.scale_x)\n",
"print(plot.camera.world.scale_y)\n",
"print(plot.camera.world.scale_z)"
]
},
{
"cell_type": "markdown",
"id": "74465402-663e-4a08-80f6-6a1f3e8c65a5",
"metadata": {},
"source": [
"### works as expected in x"
]
},
{
"cell_type": "code",
"execution_count": 73,
"id": "a00712ad-5751-4a93-832d-7d2a10ebbb98",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[-1. 1. 1.]\n"
]
}
],
"source": [
"plot.camera.world.scale = [-1, 1, 1]\n",
"\n",
"print(plot.camera.world.scale)\n",
"# this is as expected"
]
},
{
"cell_type": "code",
"execution_count": 75,
"id": "6869ccd8-79ba-4167-bf97-ab835fbe7dde",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[-1. 1. 1.]\n"
]
}
],
"source": [
"# if you repeat the same command/change, \n",
"# then nothing changes in the display (that's what I expect)\n",
"plot.camera.world.scale = [-1, 1, 1]\n",
"\n",
"print(plot.camera.world.scale)\n",
"# this is as expected"
]
},
{
"cell_type": "code",
"execution_count": 76,
"id": "4769c5f9-be04-4fae-94f1-ec7ebb9fa482",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[1. 1. 1.]\n"
]
}
],
"source": [
"# return everything to the original starting point\n",
"plot.camera.world.scale = [1, 1, 1]\n",
"\n",
"print(plot.camera.world.scale)\n",
"# works as expected"
]
},
{
"cell_type": "markdown",
"id": "99fcbf5e-727b-4104-a0cd-a172b671f420",
"metadata": {},
"source": [
"### does not work as expected in y (or z)"
]
},
{
"cell_type": "code",
"execution_count": 77,
"id": "da71685b-5ac5-4b1c-8318-8f28d4185afe",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[-1. 1. 1.]\n"
]
}
],
"source": [
"# now let's try flipping in y\n",
"plot.camera.world.scale = [1, -1, 1]\n",
"\n",
"print(plot.camera.world.scale)\n",
"# display flip works as expected,\n",
"# but `plot.camera.world.scale` returns [-1. 1. 1.]\n",
"# instead of the expected [1. -1. 1.]"
]
},
{
"cell_type": "code",
"execution_count": 78,
"id": "9a7b3856-ea19-4635-b00a-48b94eda9f42",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[-1. 1. 1.]\n"
]
}
],
"source": [
"# BUT THIS TIME IF I REPEAT THE SAME COMMAND\n",
"# I GET A DIAGONAL FLIP\n",
"# (both x and y axes flip at the same time)\n",
"plot.camera.world.scale = [1, -1, 1]\n",
"\n",
"print(plot.camera.world.scale) # also reporting only changes in x, very weird\n",
"# not as expected"
]
},
{
"cell_type": "code",
"execution_count": 82,
"id": "f828e89d-2fa0-492a-9162-17e6db1058e7",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[1. 1. 1.]\n"
]
}
],
"source": [
"# return everything to the original starting point\n",
"plot.camera.world.scale = [1, 1, 1]\n",
"\n",
"print(plot.camera.world.scale)\n",
"# works as expected"
]
},
{
"cell_type": "markdown",
"id": "1da512f4-d8a1-4442-b7d1-155a1800e70d",
"metadata": {},
"source": [
"### it also does not work as expected in z"
]
},
{
"cell_type": "code",
"execution_count": 88,
"id": "1ce8c6bf-a67c-4f5a-859c-c8b233fb5441",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[-1. 1. 1.]\n"
]
}
],
"source": [
"# now let's try flipping in z\n",
"plot.camera.world.scale = [1, 1, -1]\n",
"\n",
"print(plot.camera.world.scale)\n",
"# display seems unchanged - this is as expected because we are showing a 2d image\n",
"# but `plot.camera.world.scale` returns [-1. 1. 1.]\n",
"# instead of the expected [1. 1. -1.]"
]
},
{
"cell_type": "code",
"execution_count": 89,
"id": "45773cbd-8f9b-4515-868a-56711f0b925a",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[-1. 1. 1.]\n"
]
}
],
"source": [
"# BUT THIS TIME IF I REPEAT THE SAME COMMAND\n",
"# I GET A FLIP\n",
"plot.camera.world.scale = [1, 1, -1]\n",
"\n",
"print(plot.camera.world.scale)\n",
"# not as epected"
]
},
{
"cell_type": "code",
"execution_count": 91,
"id": "e2d6af62-73a1-4e46-b9c5-d833a0d9b8c2",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"[-1. 1. 1.]\n"
]
}
],
"source": [
"# continuing to repeat the same command continues flipping hte image along the x axis\n",
"plot.camera.world.scale = [1, 1, -1]\n",
"\n",
"print(plot.camera.world.scale)\n",
"# not as epected"
]
},
{
"cell_type": "markdown",
"id": "fc74d928-1d94-4b56-96dc-044cdd143ede",
"metadata": {},
"source": [
"## System details"
]
},
{
"cell_type": "code",
"execution_count": 61,
"id": "9456e50c-6338-4ed2-86bd-25be6961250e",
"metadata": {},
"outputs": [
{
"data": {
"text/plain": [
"'0.1.0.a12'"
]
},
"execution_count": 61,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"fpl.__version__"
]
},
{
"cell_type": "code",
"execution_count": 60,
"id": "a2bd812d-899a-4e33-978a-04b3fc42a467",
"metadata": {},
"outputs": [
{
"data": {
"text/plain": [
"{'vendor': '',\n",
" 'architecture': '',\n",
" 'device': 'Apple M1',\n",
" 'description': '',\n",
" 'adapter_type': 'IntegratedGPU',\n",
" 'backend_type': 'Metal'}"
]
},
"execution_count": 60,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"# my system details\n",
"plot.renderer.device.adapter.request_adapter_info()"
]
},
{
"cell_type": "code",
"execution_count": 59,
"id": "d3769cc5-fb64-41db-b594-f56acd9bd6a6",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"# packages in environment at /Users/genevieb/mambaforge/envs/napari-dev:\n",
"#\n",
"# Name Version Build Channel\n",
"absl-py 1.4.0 pypi_0 pypi\n",
"aiohttp 3.8.4 pypi_0 pypi\n",
"aiosignal 1.3.1 pypi_0 pypi\n",
"alabaster 0.7.13 pyhd8ed1ab_0 conda-forge\n",
"anyio 3.7.1 pyhd8ed1ab_0 conda-forge\n",
"aom 3.5.0 h7ea286d_0 conda-forge\n",
"app-model 0.1.4 pyhd8ed1ab_0 conda-forge\n",
"appdirs 1.4.4 pyh9f0ad1d_0 conda-forge\n",
"appnope 0.1.3 pyhd8ed1ab_0 conda-forge\n",
"argon2-cffi 21.3.0 pyhd8ed1ab_0 conda-forge\n",
"argon2-cffi-bindings 21.2.0 py310h8e9501a_3 conda-forge\n",
"arrow 1.2.3 pypi_0 pypi\n",
"asciitree 0.3.3 py_2 conda-forge\n",
"asttokens 2.2.1 pyhd8ed1ab_0 conda-forge\n",
"astunparse 1.6.3 pypi_0 pypi\n",
"async-lru 2.0.3 pyhd8ed1ab_0 conda-forge\n",
"async-timeout 4.0.2 pypi_0 pypi\n",
"attrs 23.1.0 pyh71513ae_1 conda-forge\n",
"autopep8 2.0.2 pyhd8ed1ab_0 conda-forge\n",
"aws-c-auth 0.7.0 h4ac17b4_1 conda-forge\n",
"aws-c-cal 0.6.0 h43a37b4_0 conda-forge\n",
"aws-c-common 0.8.23 hb547adb_0 conda-forge\n",
"aws-c-compression 0.2.17 h31a6291_1 conda-forge\n",
"aws-c-event-stream 0.3.1 h1e1aaf7_1 conda-forge\n",
"aws-c-http 0.7.10 h3107daf_3 conda-forge\n",
"aws-c-io 0.13.28 hf096fb3_0 conda-forge\n",
"aws-c-mqtt 0.8.14 h567deb8_1 conda-forge\n",
"aws-c-s3 0.3.13 hf0ec796_1 conda-forge\n",
"aws-c-sdkutils 0.1.11 h31a6291_1 conda-forge\n",
"aws-checksums 0.1.16 h31a6291_1 conda-forge\n",
"aws-crt-cpp 0.20.3 hc3a2d08_3 conda-forge\n",
"aws-sdk-cpp 1.10.57 h6f3a27c_17 conda-forge\n",
"babel 2.12.1 pyhd8ed1ab_1 conda-forge\n",
"backcall 0.2.0 pyh9f0ad1d_0 conda-forge\n",
"backports 1.0 pyhd8ed1ab_3 conda-forge\n",
"backports.functools_lru_cache 1.6.5 pyhd8ed1ab_0 conda-forge\n",
"beautifulsoup4 4.12.2 pyha770c72_0 conda-forge\n",
"bleach 6.0.0 pyhd8ed1ab_0 conda-forge\n",
"blosc 1.21.4 hc338f07_0 conda-forge\n",
"bokeh 3.2.0 pyhd8ed1ab_0 conda-forge\n",
"brotli 1.0.9 h1a8c8d9_9 conda-forge\n",
"brotli-bin 1.0.9 h1a8c8d9_9 conda-forge\n",
"brotli-python 1.0.9 py310h0f1eb42_9 conda-forge\n",
"brunsli 0.1 h9f76cd9_0 conda-forge\n",
"btrack 0.6.2 pypi_0 pypi\n",
"bzip2 1.0.8 h3422bc3_4 conda-forge\n",
"c-ares 1.19.1 hb547adb_0 conda-forge\n",
"c-blosc2 2.10.0 h068da5f_0 conda-forge\n",
"ca-certificates 2023.5.7 hf0a4a13_0 conda-forge\n",
"cached-property 1.5.2 hd8ed1ab_1 conda-forge\n",
"cached_property 1.5.2 pyha770c72_1 conda-forge\n",
"cachetools 5.3.1 pypi_0 pypi\n",
"cachey 0.2.1 pyh9f0ad1d_0 conda-forge\n",
"certifi 2023.5.7 pyhd8ed1ab_0 conda-forge\n",
"cffi 1.15.1 py310h2399d43_3 conda-forge\n",
"cfitsio 4.2.0 h2f961c4_0 conda-forge\n",
"cftime 1.6.2 py310hf1a086a_1 conda-forge\n",
"charls 2.4.2 h13dd4ca_0 conda-forge\n",
"charset-normalizer 3.2.0 pyhd8ed1ab_0 conda-forge\n",
"click 8.1.4 unix_pyh707e725_0 conda-forge\n",
"cloudpickle 2.2.1 pyhd8ed1ab_0 conda-forge\n",
"colorama 0.4.6 pyhd8ed1ab_0 conda-forge\n",
"comm 0.1.3 pyhd8ed1ab_0 conda-forge\n",
"contourpy 1.1.0 py310h38f39d4_0 conda-forge\n",
"csbdeep 0.7.3 pypi_0 pypi\n",
"cvxopt 1.3.1 py310hadc6ad6_0 conda-forge\n",
"cycler 0.11.0 pyhd8ed1ab_0 conda-forge\n",
"cython 0.29.36 py310h1253130_0 conda-forge\n",
"cytoolz 0.12.0 py310h8e9501a_1 conda-forge\n",
"dask 2023.7.0 pyhd8ed1ab_0 conda-forge\n",
"dask-core 2023.7.0 pyhd8ed1ab_0 conda-forge\n",
"dask-labextension 6.1.0 pypi_0 pypi\n",
"dav1d 1.2.1 hb547adb_0 conda-forge\n",
"debugpy 1.6.7 py310h0f1eb42_0 conda-forge\n",
"decorator 5.1.1 pyhd8ed1ab_0 conda-forge\n",
"defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge\n",
"deprecated 1.2.14 pyh1a96a4e_0 conda-forge\n",
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"tqdm 4.65.0 pyhd8ed1ab_1 conda-forge\n",
"traitlets 5.9.0 pyhd8ed1ab_0 conda-forge\n",
"typer 0.9.0 pyhd8ed1ab_0 conda-forge\n",
"typing-extensions 4.5.0 pypi_0 pypi\n",
"typing_extensions 4.7.1 pyha770c72_0 conda-forge\n",
"typing_utils 0.1.0 pyhd8ed1ab_0 conda-forge\n",
"tzdata 2023c h71feb2d_0 conda-forge\n",
"uharfbuzz 0.37.1.post1 pypi_0 pypi\n",
"umap-learn 0.5.3 py310hbe9552e_1 conda-forge\n",
"unicodedata2 15.0.0 py310h8e9501a_0 conda-forge\n",
"uri-template 1.3.0 pypi_0 pypi\n",
"urllib3 1.26.16 pypi_0 pypi\n",
"vispy 0.13.0 pypi_0 pypi\n",
"wcwidth 0.2.6 pyhd8ed1ab_0 conda-forge\n",
"webcolors 1.13 pypi_0 pypi\n",
"webencodings 0.5.1 py_1 conda-forge\n",
"websocket-client 1.6.1 pyhd8ed1ab_0 conda-forge\n",
"werkzeug 2.3.6 pypi_0 pypi\n",
"wgpu 0.9.4 pypi_0 pypi\n",
"wheel 0.40.0 pyhd8ed1ab_0 conda-forge\n",
"widgetsnbextension 4.0.8 pyhd8ed1ab_0 conda-forge\n",
"wrapt 1.15.0 py310h8e9501a_0 conda-forge\n",
"xorg-libxau 1.0.11 hb547adb_0 conda-forge\n",
"xorg-libxdmcp 1.1.3 h27ca646_0 conda-forge\n",
"xyzservices 2023.5.0 pyhd8ed1ab_1 conda-forge\n",
"xz 5.2.6 h57fd34a_0 conda-forge\n",
"yaml 0.2.5 h3422bc3_2 conda-forge\n",
"yarl 1.9.2 pypi_0 pypi\n",
"zarr 2.15.0 pyhd8ed1ab_0 conda-forge\n",
"zenodo_get 1.3.4 pyhd8ed1ab_0 conda-forge\n",
"zeromq 4.3.4 hbdafb3b_1 conda-forge\n",
"zfp 1.0.0 hb6e4faa_3 conda-forge\n",
"zict 3.0.0 pyhd8ed1ab_0 conda-forge\n",
"zipp 3.16.0 pyhd8ed1ab_1 conda-forge\n",
"zlib 1.2.13 h53f4e23_5 conda-forge\n",
"zlib-ng 2.0.7 h1a8c8d9_0 conda-forge\n",
"zstd 1.5.2 h4f39d0f_7 conda-forge\n"
]
}
],
"source": [
"!conda list"
]
},
{
"cell_type": "code",
"execution_count": null,
"id": "a1c4fcf4-f34f-4448-a27f-f29176768cd4",
"metadata": {},
"outputs": [],
"source": []
}
],
"metadata": {
"kernelspec": {
"display_name": "Python 3 (ipykernel)",
"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": "3.10.12"
}
},
"nbformat": 4,
"nbformat_minor": 5
}
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