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Merge pull request #231635 from natsukium/bwa/build-on-aarch64

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bwa: 0.7.17 -> unstable-2022-09-23
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Weijia Wang 2023-05-18 01:10:14 +03:00 committed by GitHub
commit 7c6ca2791b
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1 changed files with 14 additions and 18 deletions
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32
pkgs/applications/science/biology/bwa/default.nix
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@ -1,24 +1,16 @@
{ lib, stdenv, fetchurl, fetchpatch, zlib }: { lib, stdenv, fetchFromGitHub, zlib }:
stdenv.mkDerivation rec { stdenv.mkDerivation {
pname = "bwa"; pname = "bwa";
version = "0.7.17"; version = "unstable-2022-09-23";
src = fetchurl { src = fetchFromGitHub {
url = "mirror://sourceforge/bio-bwa/${pname}-${version}.tar.bz2"; owner = "lh3";
sha256 = "1zfhv2zg9v1icdlq4p9ssc8k01mca5d1bd87w71py2swfi74s6yy"; 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 ]; buildInputs = [ zlib ];
# Avoid hardcoding gcc to allow environments with a different # 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 # 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 # so we may find ourselves having to add more here over time
installPhase = '' installPhase = ''
runHook preInstall
install -vD -t $out/bin bwa install -vD -t $out/bin bwa
install -vD -t $out/lib libbwa.a install -vD -t $out/lib libbwa.a
install -vD -t $out/include bntseq.h install -vD -t $out/include bntseq.h
install -vD -t $out/include bwa.h install -vD -t $out/include bwa.h
install -vD -t $out/include bwamem.h install -vD -t $out/include bwamem.h
install -vD -t $out/include bwt.h install -vD -t $out/include bwt.h
runHook postInstall
''; '';
meta = with lib; { meta = with lib; {
description = "A software package for mapping low-divergent sequences against a large reference genome, such as the human genome"; 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/"; homepage = "https://bio-bwa.sourceforge.net/";
maintainers = with maintainers; [ luispedro ]; maintainers = with maintainers; [ luispedro ];
platforms = platforms.x86_64; platforms = platforms.unix;
}; };
} }