depot/third_party/nixpkgs/pkgs/applications/science/biology/bowtie2/default.nix

{ lib, stdenv, fetchFromGitHub, cmake, tbb, zlib }:

stdenv.mkDerivation rec {
  pname = "bowtie2";
  version = "2.4.2";

  src = fetchFromGitHub {
    owner = "BenLangmead";
    repo = pname;
    rev = "v${version}";
    sha256 = "11apzq7l1lk3yxw97g9dfr0gwnvfh58x6apifcblgd66gbip3y1y";
  };

  nativeBuildInputs = [ cmake ];

  buildInputs = [ tbb zlib ];

  meta = with lib; {
    description = "An ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences";
    license = licenses.gpl3;
    homepage = "http://bowtie-bio.sf.net/bowtie2";
    maintainers = with maintainers; [ rybern ];
    platforms = platforms.all;
    broken = stdenv.isAarch64; # only x86 is supported
  };
}