nixpkgs/pkgs/applications/science/biology/mni_autoreg/default.nix

{ stdenv, fetchFromGitHub, cmake, makeWrapper, perl, GetoptTabular, MNI-Perllib, libminc }:

stdenv.mkDerivation rec {
  pname = "mni_autoreg";
  name  = "${pname}-2017-09-22";

  src = fetchFromGitHub {
    owner = "BIC-MNI";
    repo = pname;
    rev = "ab99e29987dc029737785baebf24896ec37a2d76";
    sha256 = "0axl069nv57vmb2wvqq7s9v3bfxwspzmk37bxm4973ai1irgppjq";
  };

  nativeBuildInputs = [ cmake makeWrapper ];
  buildInputs = [ libminc ];
  propagatedBuildInputs = [ perl GetoptTabular MNI-Perllib ];

  cmakeFlags = [ "-DLIBMINC_DIR=${libminc}/lib/" "-DBUILD_TESTING=FALSE" ];
  # testing broken: './minc_wrapper: Permission denied' from Testing/ellipse0.mnc

  postFixup = ''
    for prog in autocrop mritoself mritotal xfmtool; do
      echo $out/bin/$prog
      wrapProgram $out/bin/$prog --prefix PERL5LIB : $PERL5LIB;
    done
  '';

  meta = with stdenv.lib; {
    homepage = https://github.com/BIC-MNI/mni_autoreg;
    description = "Tools for automated registration using the MINC image format";
    maintainers = with maintainers; [ bcdarwin ];
    platforms = platforms.unix;
    license = licenses.free;
  };
}