diff options
author | Weijia Wang <9713184+wegank@users.noreply.github.com> | 2023-05-18 01:10:14 +0300 |
---|---|---|
committer | GitHub <noreply@github.com> | 2023-05-18 01:10:14 +0300 |
commit | 7c6ca2791b132c4378427f6ee182efc6b8a11dbe (patch) | |
tree | 6393fd8e6ede4e8c3a02b08a1342e8f0452f54eb /pkgs/applications/science | |
parent | 5b7eef5eeeb0d872f09942c04c86927ee725e6dd (diff) | |
parent | 04dd7f41e720c10c48ba65f60a3063740fe081c8 (diff) |
Merge pull request #231635 from natsukium/bwa/build-on-aarch64
bwa: 0.7.17 -> unstable-2022-09-23
Diffstat (limited to 'pkgs/applications/science')
-rw-r--r-- | pkgs/applications/science/biology/bwa/default.nix | 32 |
1 files changed, 14 insertions, 18 deletions
diff --git a/pkgs/applications/science/biology/bwa/default.nix b/pkgs/applications/science/biology/bwa/default.nix index d9ae226027a0b..4786f25beb506 100644 --- a/pkgs/applications/science/biology/bwa/default.nix +++ b/pkgs/applications/science/biology/bwa/default.nix @@ -1,24 +1,16 @@ -{ lib, stdenv, fetchurl, fetchpatch, zlib }: +{ lib, stdenv, fetchFromGitHub, zlib }: -stdenv.mkDerivation rec { +stdenv.mkDerivation { pname = "bwa"; - version = "0.7.17"; + version = "unstable-2022-09-23"; - src = fetchurl { - url = "mirror://sourceforge/bio-bwa/${pname}-${version}.tar.bz2"; - sha256 = "1zfhv2zg9v1icdlq4p9ssc8k01mca5d1bd87w71py2swfi74s6yy"; + src = fetchFromGitHub { + owner = "lh3"; + repo = "bwa"; + rev = "139f68fc4c3747813783a488aef2adc86626b01b"; + hash = "sha256-8u35lTK6gBKeapYoIkG9MuJ/pyy/HFA2OiPn+Ml2C6c="; }; - patches = [ - # Pull upstream patch for -fno-common toolchain support like upstream - # gcc-10: https://github.com/lh3/bwa/pull/267 - (fetchpatch { - name = "fno-common.patch"; - url = "https://github.com/lh3/bwa/commit/2a1ae7b6f34a96ea25be007ac9d91e57e9d32284.patch"; - sha256 = "1lihfxai6vcshv5vr3m7yhk833bdivkja3gld6ilwrc4z28f6wqy"; - }) - ]; - buildInputs = [ zlib ]; # Avoid hardcoding gcc to allow environments with a different @@ -32,19 +24,23 @@ stdenv.mkDerivation rec { # it's unclear which headers are intended to be part of the public interface # so we may find ourselves having to add more here over time installPhase = '' + runHook preInstall + install -vD -t $out/bin bwa install -vD -t $out/lib libbwa.a install -vD -t $out/include bntseq.h install -vD -t $out/include bwa.h install -vD -t $out/include bwamem.h install -vD -t $out/include bwt.h + + runHook postInstall ''; meta = with lib; { description = "A software package for mapping low-divergent sequences against a large reference genome, such as the human genome"; - license = licenses.gpl3; + license = licenses.gpl3Plus; homepage = "https://bio-bwa.sourceforge.net/"; maintainers = with maintainers; [ luispedro ]; - platforms = platforms.x86_64; + platforms = platforms.unix; }; } |