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{
lib,
buildPythonPackage,
fetchFromGitLab,
setuptools,
dill,
h5py,
nibabel,
numpy,
scipy,
indexed-gzip,
pillow,
rtree,
trimesh,
wxpython,
pytestCheckHook,
pytest-cov-stub,
tomli,
}:
buildPythonPackage rec {
pname = "fslpy";
version = "3.23.0";
pyproject = true;
src = fetchFromGitLab {
domain = "git.fmrib.ox.ac.uk";
owner = "fsl";
repo = "fslpy";
tag = version;
hash = "sha256-lY/7TNOqGK0pRm5Rne1nrqXVQDZPkHwlZV9ITsOwp9Q=";
};
build-system = [ setuptools ];
dependencies = [
dill
h5py
nibabel
numpy
scipy
];
optional-dependencies = {
extra = [
indexed-gzip
pillow
rtree
trimesh
wxpython
];
};
nativeCheckInputs = [
pytestCheckHook
pytest-cov-stub
tomli
]
++ optional-dependencies.extra;
disabledTestPaths = [
# tries to download data:
"fsl/tests/test_dicom.py"
# tests exit with "SystemExit: Unable to access the X Display, is $DISPLAY set properly?"
"fsl/tests/test_idle.py"
"fsl/tests/test_platform.py"
# require FSL's atlas library (via $FSLDIR), which has an unfree license:
"fsl/tests/test_atlases.py"
"fsl/tests/test_atlases_query.py"
"fsl/tests/test_parse_data.py"
"fsl/tests/test_scripts/test_atlasq_list_summary.py"
"fsl/tests/test_scripts/test_atlasq_ohi.py"
"fsl/tests/test_scripts/test_atlasq_query.py"
# requires FSL (unfree and not in Nixpkgs):
"fsl/tests/test_fslsub.py"
"fsl/tests/test_run.py"
"fsl/tests/test_wrappers"
];
pythonImportsCheck = [
"fsl"
"fsl.data"
"fsl.scripts"
"fsl.transform"
"fsl.utils"
"fsl.wrappers"
];
meta = {
description = "FSL Python library";
homepage = "https://git.fmrib.ox.ac.uk/fsl/fslpy";
changelog = "https://git.fmrib.ox.ac.uk/fsl/fslpy/-/blob/main/CHANGELOG.rst";
license = lib.licenses.asl20;
maintainers = with lib.maintainers; [ bcdarwin ];
};
}
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