45 lines
1.2 KiB
Nix
45 lines
1.2 KiB
Nix
{stdenv, fetchFromGitHub, nim, htslib, pcre}:
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let
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hts-nim = fetchFromGitHub {
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owner = "brentp";
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repo = "hts-nim";
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rev = "v0.3.4";
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sha256 = "0670phk1bq3l9j2zaa8i5wcpc5dyfrc0l2a6c21g0l2mmdczffa7";
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};
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docopt = fetchFromGitHub {
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owner = "docopt";
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repo = "docopt.nim";
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rev = "v0.6.7";
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sha256 = "1ga7ckg21fzwwvh26jp2phn2h3pvkn8g8sm13dxif33rp471bv37";
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};
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in stdenv.mkDerivation rec {
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pname = "mosdepth";
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version = "0.2.9";
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src = fetchFromGitHub {
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owner = "brentp";
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repo = "mosdepth";
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rev = "v${version}";
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sha256 = "01gm9gj2x2zs4yx6wk761fi1papi7qr3gp4ln1kkn8n2f9y9h849";
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};
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buildInputs = [ nim ];
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buildPhase = ''
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HOME=$TMPDIR
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nim -p:${hts-nim}/src -p:${docopt}/src c --nilseqs:on -d:release mosdepth.nim
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'';
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installPhase = "install -Dt $out/bin mosdepth";
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fixupPhase = "patchelf --set-rpath ${stdenv.lib.makeLibraryPath [ stdenv.cc.cc htslib pcre ]} $out/bin/mosdepth";
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meta = with stdenv.lib; {
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description = "fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing.";
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license = licenses.mit;
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homepage = "https://github.com/brentp/mosdepth";
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maintainers = with maintainers; [ jbedo ];
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platforms = platforms.linux;
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};
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}
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