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| author | mimadrid <mimadrid@ucm.es> | 2017-09-30 19:44:48 +0200 |
|---|---|---|
| committer | mimadrid <mimadrid@ucm.es> | 2017-09-30 22:20:02 +0200 |
| commit | ee2c76693e0ac2917fc74c737e0eee18a852fe6c (patch) | |
| tree | ee7039be166324d8bc76d8d8c5c0e8ab33502da1 /pkgs/applications | |
| parent | 25b17ae1d78e0c2d48ac4a16a70f548661570add (diff) | |
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samtools: 1.5.0 -> 1.6.0
Diffstat (limited to 'pkgs/applications')
| -rw-r--r-- | pkgs/applications/science/biology/samtools/default.nix | 16 |
1 files changed, 13 insertions, 3 deletions
diff --git a/pkgs/applications/science/biology/samtools/default.nix b/pkgs/applications/science/biology/samtools/default.nix index f8391a2d6b3c..0f1f4692eb71 100644 --- a/pkgs/applications/science/biology/samtools/default.nix +++ b/pkgs/applications/science/biology/samtools/default.nix @@ -1,21 +1,31 @@ -{ stdenv, fetchurl, zlib, htslib, ncurses ? null }: +{ stdenv, fetchurl, zlib, htslib, perl, ncurses ? null }: stdenv.mkDerivation rec { name = "${pname}-${version}"; pname = "samtools"; - major = "1.5"; + major = "1.6"; version = "${major}.0"; src = fetchurl { url = "https://github.com/samtools/samtools/releases/download/${major}/samtools-${major}.tar.bz2"; - sha256 = "1xidmv0jmfy7l0kb32hdnlshcxgzi1hmygvig0cqrq1fhckdlhl5"; + sha256 = "17p4vdj2j2qr3b2c0v4100h6cg4jj3zrb4dmdnd9d9aqs74d4p7f"; }; buildInputs = [ zlib ncurses ]; + propagatedBuildInputs = [ htslib ]; + configureFlags = [ "--with-htslib=${htslib}" ] ++ stdenv.lib.optional (ncurses == null) "--without-curses"; + enableParallelBuilding = true; + + doCheck = true; + + preCheck = '' + sed -ie 's|/usr/bin/\(env[[:space:]]\)\{0,1\}perl|${perl}/bin/perl|' test/test.pl + ''; + meta = with stdenv.lib; { description = "Tools for manipulating SAM/BAM/CRAM format"; license = licenses.mit; |