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What happens if I push all of nixpkgs
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1.7 kB · 85 lines
Nix
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buildPythonPackage rec { pname = "cnvkit"; version = "0.9.10"; format = "setuptools";
disabled = pythonOlder "3.7";
src = fetchFromGitHub { owner = "etal"; repo = "cnvkit"; rev = "refs/tags/v${version}"; hash = "sha256-mCQXo3abwC06x/g51UBshqUk3dpqEVNUvx+cJ/EdYGQ="; };
postPatch = '' # see https://github.com/etal/cnvkit/issues/589 substituteInPlace setup.py \ --replace 'joblib < 1.0' 'joblib' # see https://github.com/etal/cnvkit/issues/680 substituteInPlace test/test_io.py \ --replace 'test_read_vcf' 'dont_test_read_vcf' '';
propagatedBuildInputs = [ biopython numpy scipy scikit-learn pandas matplotlib reportlab pyfaidx pysam future pillow pomegranate rPackages.DNAcopy ];
nativeCheckInputs = [ R ];
checkPhase = '' pushd test/ ${python.interpreter} test_io.py ${python.interpreter} test_genome.py ${python.interpreter} test_cnvlib.py ${python.interpreter} test_commands.py ${python.interpreter} test_r.py popd # test/ '';
pythonImportsCheck = [ "cnvlib" ];
meta = with lib; { homepage = "https://cnvkit.readthedocs.io"; description = "A Python library and command-line software toolkit to infer and visualize copy number from high-throughput DNA sequencing data"; changelog = "https://github.com/etal/cnvkit/releases/tag/v${version}"; license = licenses.asl20; maintainers = [ maintainers.jbedo ]; };}