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{
lib,
buildPythonPackage,
fetchFromGitHub,
pythonOlder,
pytestCheckHook,
numpy,
pykwalify,
pywavelets,
setuptools,
simpleitk,
six,
versioneer,
}:
buildPythonPackage rec {
pname = "pyradiomics";
version = "3.1.0";
format = "pyproject";
disabled = pythonOlder "3.6";
src = fetchFromGitHub {
owner = "AIM-Harvard";
repo = "pyradiomics";
rev = "refs/tags/v${version}";
hash = "sha256-/qFNN63Bbq4DUZDPmwUGj1z5pY3ujsbqFJpVXbO+b8E=";
name = "pyradiomics";
};
nativeBuildInputs = [
setuptools
versioneer
];
propagatedBuildInputs = [
numpy
pykwalify
pywavelets
simpleitk
six
];
nativeCheckInputs = [ pytestCheckHook ];
preCheck = ''
rm -rf radiomics
'';
# tries to access network at collection time:
disabledTestPaths = [ "tests/test_wavelet.py" ];
# various urllib download errors and (probably related) missing feature errors:
disabledTests = [
"brain1_shape2D-original_shape2D"
"brain2_shape2D-original_shape2D"
"breast1_shape2D-original_shape2D"
"lung1_shape2D-original_shape2D"
"lung2_shape2D-original_shape2D"
];
# note the above elements of disabledTests are patterns, not exact tests,
# so simply setting `disabledTests` does not suffice:
pytestFlagsArray = [
"-k '${toString (lib.intersperse "and" (lib.forEach disabledTests (t: "not ${t}")))}'"
];
pythonImportsCheck = [ "radiomics" ];
meta = with lib; {
homepage = "https://pyradiomics.readthedocs.io";
description = "Extraction of Radiomics features from 2D and 3D images and binary masks";
mainProgram = "pyradiomics";
changelog = "https://github.com/AIM-Harvard/pyradiomics/releases/tag/v${version}";
license = licenses.bsd3;
maintainers = with maintainers; [ bcdarwin ];
};
}
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