pkgs/applications/science/chemistry/jmol/default.nix

   1 { stdenv
   2 , lib
   3 , fetchurl
   4 , unzip
   5 , makeDesktopItem
   6 , jre
   7 }:
   8
   9 let
  10   desktopItem = makeDesktopItem {
  11     name = "jmol";
  12     exec = "jmol";
  13     desktopName = "JMol";
  14     genericName = "Molecular Modeler";
  15     mimeTypes = [
  16       "chemical/x-pdb"
  17       "chemical/x-mdl-molfile"
  18       "chemical/x-mol2"
  19       "chemical/seq-aa-fasta"
  20       "chemical/seq-na-fasta"
  21       "chemical/x-xyz"
  22       "chemical/x-mdl-sdf"
  23     ];
  24     categories = [ "Graphics" "Education" "Science" "Chemistry" ];
  25   };
  26 in
  27 stdenv.mkDerivation rec {
  28   version = "16.3.1";
  29   pname = "jmol";
  30
  31   src = let
  32     baseVersion = "${lib.versions.major version}.${lib.versions.minor version}";
  33   in fetchurl {
  34     url = "mirror://sourceforge/jmol/Jmol/Version%20${baseVersion}/Jmol%20${version}/Jmol-${version}-binary.tar.gz";
  35     hash = "sha256-mjID6o+2yhzKd1g3MO4as1dA11nhessjzCDHSUyUQBw=";
  36   };
  37
  38   patchPhase = ''
  39     sed -i -e "4s:.*:command=${jre}/bin/java:" -e "10s:.*:jarpath=$out/share/jmol/Jmol.jar:" -e "11,21d" jmol
  40   '';
  41
  42   installPhase = ''
  43     mkdir -p "$out/share/jmol" "$out/bin"
  44
  45     ${unzip}/bin/unzip jsmol.zip -d "$out/share/"
  46
  47     cp *.jar jmol.sh "$out/share/jmol"
  48     cp -r ${desktopItem}/share/applications $out/share
  49     cp jmol $out/bin
  50   '';
  51
  52   enableParallelBuilding = true;
  53
  54   meta = with lib; {
  55      description = "Java 3D viewer for chemical structures";
  56      mainProgram = "jmol";
  57      homepage = "https://sourceforge.net/projects/jmol";
  58      sourceProvenance = with sourceTypes; [ binaryBytecode ];
  59      license = licenses.lgpl2;
  60      platforms = platforms.all;
  61      maintainers = with maintainers; [ mounium ] ++ teams.sage.members;
  62   };
  63 }