Unverified Commit 13fe1eff authored by natsukium's avatar natsukium
Browse files

bowtie2: fix build on aarch64

parent aae51697

pkgs/applications/science/biology/bowtie2/default.nix

+12 −2
Original line number Diff line number Diff line
@@ -16,13 +16,24 @@ stdenv.mkDerivation (finalAttrs: { 
    owner = "BenLangmead";

    repo = "bowtie2";

    rev = "refs/tags/v${finalAttrs.version}";

    sha256 = "sha256-Bem4SHY/74suZPDbw/rwKMLBn3bRq5ooHbBoVnKuYk0=";

    fetchSubmodules = true;

    hash = "sha256-rWeopeYuCk9ZhJX2SFCcxZWcjXjjTiVRiwkzLQcIgd0=";

  };



  # because of this flag, gcc on aarch64 cannot find the Threads

  # Could NOT find Threads (missing: Threads_FOUND)

  # TODO: check with other distros and report upstream

  postPatch = ''

    substituteInPlace CMakeLists.txt \

      --replace "-m64" ""

  '';



  nativeBuildInputs = [ cmake ];



  buildInputs = [ tbb zlib python3 perl ];



  cmakeFlags = lib.optional (!stdenv.hostPlatform.isx86) ["-DCMAKE_CXX_FLAGS=-I${finalAttrs.src}/third_party"];



  meta = with lib; {

    description = "An ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences";

    license = licenses.gpl3Plus;
@@ -30,7 +41,6 @@ stdenv.mkDerivation (finalAttrs: { 
    changelog = "https://github.com/BenLangmead/bowtie2/releases/tag/${finalAttrs.src.rev}";

    maintainers = with maintainers; [ rybern ];

    platforms = platforms.all;

    broken = stdenv.isAarch64; # only x86 is supported

    mainProgram = "bowtie2";

  };

})