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{ lib, stdenv, fetchurl, htslib, zlib, bzip2, lzma, curl, perl, python, bash }:
stdenv.mkDerivation rec {
pname = "bcftools";
version = "1.11";
src = fetchurl {
url = "https://github.com/samtools/bcftools/releases/download/${version}/${pname}-${version}.tar.bz2";
sha256 = "0r508mp15pqzf8r1269kb4v5naw9zsvbwd3cz8s1yj7carsf9viw";
};
buildInputs = [ htslib zlib bzip2 lzma curl perl python ];
makeFlags = [
"HSTDIR=${htslib}"
"prefix=$(out)"
"CC=cc"
];
preCheck = ''
patchShebangs misc/
patchShebangs test/
sed -ie 's|/bin/bash|${bash}/bin/bash|' test/test.pl
'';
enableParallelBuilding = true;
doCheck = true;
meta = with lib; {
description = "Tools for manipulating BCF2/VCF/gVCF format, SNP and short indel sequence variants";
license = licenses.mit;
homepage = "http://www.htslib.org/";
platforms = platforms.unix;
maintainers = [ maintainers.mimame ];
};
}
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