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{ lib
, fetchPypi
, rPackages
, rWrapper
, buildPythonPackage
, biopython
, numpy
, scipy
, pandas
, matplotlib
, reportlab
, pysam
, future
, pillow
, pomegranate
, pyfaidx
}:
buildPythonPackage rec {
pname = "CNVkit";
version = "0.9.6";
src = fetchPypi {
inherit pname version;
sha256 = "1hj8c98s538i0hg5mrz4bw4v07qmcl51rhxq611rj2nglnc9r25y";
};
propagatedBuildInputs = [
biopython
numpy
scipy
pandas
matplotlib
reportlab
pyfaidx
pysam
future
pillow
pomegranate
];
postPatch = ''
substituteInPlace setup.py \
--replace "pandas >= 0.20.1, < 0.25.0" "pandas"
'';
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";
license = licenses.asl20;
maintainers = [ maintainers.jbedo ];
};
}
|