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

{ lib, stdenv, fetchFromGitHub, cmake, tbb, zlib, python3, perl }:

stdenv.mkDerivation rec {
  pname = "bowtie2";
  version = "2.5.1";

  src = fetchFromGitHub {
    owner = "BenLangmead";
    repo = pname;
    rev = "v${version}";
    sha256 = "sha256-HaiZmWU6akHXJVWBmCvkG2E61NDrAP7UIxx9DNCEZqE=";
  };

  nativeBuildInputs = [ cmake ];

  buildInputs = [ tbb zlib python3 perl ];

  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
  };
}