blob: 98b0394c35f1f1832b76bbbc82825b950bda8b9a (
plain) (
blame)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
|
{ lib, stdenv, fetchurl, fetchpatch, zlib, htslib, perl, ncurses ? null }:
stdenv.mkDerivation rec {
pname = "samtools";
version = "1.13";
src = fetchurl {
url = "https://github.com/samtools/samtools/releases/download/${version}/${pname}-${version}.tar.bz2";
sha256 = "sha256-YWyi4FHMgAmh6cAc/Yx8r4twkW3f9m87dpFAeUZfjGA=";
};
patches = [
# Pull upstream patch for ncurses-6.3 support
(fetchpatch {
name = "ncurses-6.3.patch";
url = "https://github.com/samtools/samtools/commit/396ef20eb0854d6b223c3223b60bb7efe42301f7.patch";
sha256 = "sha256-p0l9ymXK9nqL2w8EytbW+qeaI7dD86IQgIVxacBj838=";
})
];
nativeBuildInputs = [ perl ];
buildInputs = [ zlib ncurses htslib ];
configureFlags = [ "--with-htslib=${htslib}" ]
++ lib.optional (ncurses == null) "--without-curses";
preCheck = ''
patchShebangs test/
'';
enableParallelBuilding = true;
doCheck = true;
meta = with lib; {
description = "Tools for manipulating SAM/BAM/CRAM format";
license = licenses.mit;
homepage = "http://www.htslib.org/";
platforms = platforms.unix;
maintainers = with maintainers; [ mimame unode ];
};
}
|