646b892680
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61 lines
1.2 KiB
Nix
61 lines
1.2 KiB
Nix
{
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lib,
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stdenv,
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fetchurl,
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zlib,
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htslib,
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perl,
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ncurses ? null,
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}:
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stdenv.mkDerivation rec {
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pname = "samtools";
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version = "1.22.1";
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src = fetchurl {
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url = "https://github.com/samtools/samtools/releases/download/${version}/${pname}-${version}.tar.bz2";
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hash = "sha256-Aqpc0LpS4GwggAVOBZ19d6iF3+lxfDHNid/npAR+2g4=";
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};
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# tests require `bgzip` from the htslib package
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nativeCheckInputs = [ htslib ];
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nativeBuildInputs = [ perl ];
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buildInputs = [
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zlib
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ncurses
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htslib
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];
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preConfigure = lib.optional stdenv.hostPlatform.isStatic ''
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export LIBS="-lz -lbz2 -llzma"
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'';
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makeFlags = lib.optional stdenv.hostPlatform.isStatic "AR=${stdenv.cc.targetPrefix}ar";
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configureFlags = [
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"--with-htslib=${htslib}"
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]
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++ lib.optional (ncurses == null) "--without-curses"
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++ lib.optionals stdenv.hostPlatform.isStatic [ "--without-curses" ];
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preCheck = ''
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patchShebangs test/
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'';
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enableParallelBuilding = true;
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doCheck = true;
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meta = with lib; {
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description = "Tools for manipulating SAM/BAM/CRAM format";
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license = licenses.mit;
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homepage = "http://www.htslib.org/";
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platforms = platforms.unix;
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maintainers = with maintainers; [
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mimame
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unode
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];
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};
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}
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