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|
{stdenv, fetchFromGitHub, nim, htslib, pcre}:
let
hts-nim = fetchFromGitHub {
owner = "brentp";
repo = "hts-nim";
rev = "v0.3.4";
sha256 = "0670phk1bq3l9j2zaa8i5wcpc5dyfrc0l2a6c21g0l2mmdczffa7";
};
docopt = fetchFromGitHub {
owner = "docopt";
repo = "docopt.nim";
rev = "v0.6.7";
sha256 = "1ga7ckg21fzwwvh26jp2phn2h3pvkn8g8sm13dxif33rp471bv37";
};
in stdenv.mkDerivation rec {
pname = "mosdepth";
version = "0.3.1";
src = fetchFromGitHub {
owner = "brentp";
repo = "mosdepth";
rev = "v${version}";
sha256 = "1kcrvamrafz1m0s7mlbhaay8jyg97l1w37p6syl36r2m1plmwxjd";
};
nativeBuildInputs = [ nim ];
buildInputs = [ htslib pcre ];
buildPhase = ''
HOME=$TMPDIR
nim -p:${hts-nim}/src -p:${docopt}/src c --nilseqs:on -d:release mosdepth.nim
'';
installPhase = "install -Dt $out/bin mosdepth";
meta = with stdenv.lib; {
description = "fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing";
license = licenses.mit;
homepage = "https://github.com/brentp/mosdepth";
maintainers = with maintainers; [ jbedo ];
platforms = platforms.linux;
};
}
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