75 lines
1.4 KiB
Nix
75 lines
1.4 KiB
Nix
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{
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lib,
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buildPythonPackage,
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fetchFromGitHub,
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setuptools,
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cython,
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oldest-supported-numpy,
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requests,
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decorator,
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natsort,
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numpy,
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pandas,
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scipy,
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h5py,
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biom-format,
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statsmodels,
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patsy,
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python,
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pytestCheckHook,
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}:
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buildPythonPackage rec {
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pname = "scikit-bio";
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version = "0.6.2";
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pyproject = true;
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src = fetchFromGitHub {
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owner = "scikit-bio";
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repo = "scikit-bio";
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rev = "refs/tags/${version}";
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hash = "sha256-1L3AemXVqfgBDlRZorG7+8qt3f1Bm8L+Se+OwqEWwI4=";
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};
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build-system = [
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setuptools
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cython
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oldest-supported-numpy
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];
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dependencies = [
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requests
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decorator
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natsort
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numpy
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pandas
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scipy
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h5py
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biom-format
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statsmodels
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patsy
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];
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nativeCheckInputs = [ pytestCheckHook ];
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# only the $out dir contains the built cython extensions, so we run the tests inside there
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pytestFlagsArray = [ "${placeholder "out"}/${python.sitePackages}/skbio" ];
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disabledTestPaths = [
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# don't know why, but this segfaults
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"${placeholder "out"}/${python.sitePackages}/skbio/metadata/tests/test_intersection.py"
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];
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pythonImportsCheck = [ "skbio" ];
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meta = {
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homepage = "http://scikit-bio.org/";
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description = "Data structures, algorithms and educational resources for bioinformatics";
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license = lib.licenses.bsd3;
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maintainers = with lib.maintainers; [ tomasajt ];
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};
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}
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