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{
lib,
stdenv,
buildPythonPackage,
fetchFromGitHub,
# build-system
uv-build,
# dependencies
deprecated,
einops,
humanize,
nibabel,
numpy,
packaging,
rich,
scipy,
simpleitk,
torch,
tqdm,
typer,
# optional dependencies
colorcet,
matplotlib,
pandas,
ffmpeg-python,
scikit-learn,
# tests
parameterized,
pytestCheckHook,
}:
buildPythonPackage rec {
pname = "torchio";
version = "0.21.1";
pyproject = true;
src = fetchFromGitHub {
owner = "TorchIO-project";
repo = "torchio";
tag = "v${version}";
hash = "sha256-ut1uRak87J5b1bjLkupUB2HZEog8WVFwLMHNtNhmC4s=";
};
build-system = [
uv-build
];
dependencies = [
deprecated
einops
humanize
nibabel
numpy
packaging
rich
scipy
simpleitk
torch
tqdm
typer
];
optional-dependencies = {
csv = [ pandas ];
plot = [
colorcet
matplotlib
];
video = [ ffmpeg-python ];
sklearn = [ scikit-learn ];
};
nativeCheckInputs = [
matplotlib
parameterized
pytestCheckHook
];
disabledTests = [
# tries to download models:
"test_load_all"
]
++ lib.optionals stdenv.hostPlatform.isAarch64 [
# RuntimeError: DataLoader worker (pid(s) <...>) exited unexpectedly
"test_queue_multiprocessing"
];
pythonImportsCheck = [
"torchio"
"torchio.data"
];
meta = {
description = "Medical imaging toolkit for deep learning";
homepage = "https://docs.torchio.org";
changelog = "https://github.com/TorchIO-project/torchio/blob/${src.tag}/CHANGELOG.md";
license = lib.licenses.asl20;
maintainers = [ lib.maintainers.bcdarwin ];
};
}
|
