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{ lib
, fetchurl
, rPackages
, rWrapper
, buildPythonPackage
, fetchPypi
, biopython
, six
, numpy
, pillow
, pysam
, future
, scipy
, pandas
, matplotlib
, reportlab
, zlib
, bzip2
, htslib
, libjpeg
, pkgconfig
, futures
}:
let pyfaidx = buildPythonPackage rec {
pname = "pyfaidx";
version = "0.5.3.1";
src = fetchPypi {
inherit pname version;
sha256 = "0mjbksbj9hh2cf0yjr951cjahhn0lg7p71kd3kvbnscqyxa44kfr";
};
propagatedBuildInputs = [ six ];
};
cghFLasso = rPackages.buildRPackage rec {
name = "cghFLasso-${version}";
version = "0.2-1";
src = fetchurl {
url = "https://cran.r-project.org/src/contrib/Archive/cghFLasso/cghFLasso_${version}.tar.gz";
sha256 = "0b1hnjf9g0v47hbz0dy9m6jhcl1ky20yyhhmm8myng2sndcpjsbf";
};
};
cnvR = rWrapper.override {
packages = with rPackages; [ DNAcopy cghFLasso ];
};
in buildPythonPackage rec {
pname = "CNVkit";
version = "0.9.5";
src = fetchPypi {
inherit pname version;
sha256 = "1sa70bmnxj1lzp33pbj3axk6n77czswwj9cirimxh2qrn84i7vs3";
};
propagatedBuildInputs = [ biopython numpy scipy pandas matplotlib reportlab pyfaidx pysam futures future pillow cnvR ];
}
|
