python3Packages.graph-tool: fix build against Clang >= 21 (#465951)

  buildPythonPackage,

  lib,

  fetchurl,

  fetchpatch,

  stdenv,

  boost,

  boost189,

  cairomm,

  cgal,

  expat,

  gmp,

  fontconfig,

  gobject-introspection,

  graphviz,

  gtk3,

  llvmPackages,

  matplotlib,

  python,

  scipy,

  sparsehash,

  zstandard,

  gitUpdater,

}:

let

  boost' = boost.override {

  boost' = boost189.override {

    patches = [

      # required to build against Clang >= 21 (https://github.com/boostorg/lexical_cast/pull/87)

      # TODO: drop when upgrading to Boost >= 1.90

      (fetchpatch {

        name = "Reduce-dependency-on-Boost.TypeTraits-now-that-C-11-.patch";

        url = "https://github.com/boostorg/lexical_cast/commit/8fc8a19931c8cb452400af907959fdacbbdd8ec1.patch";

        relative = "include";

        hash = "sha256-OO39ejR+I5ufjqinrMJ6HgjTE7Ph+XBu50PqcIKaIQo=";

      })

    ];

    enablePython = true;

    inherit python;

  };

buildPythonPackage rec {

  pname = "graph-tool";

  version = "2.98";

  format = "other";

  pyproject = false;

  src = fetchurl {

    url = "https://downloads.skewed.de/graph-tool/graph-tool-${version}.tar.bz2";

    hash = "sha256-7vGUi5N/XwQ3Se7nX+DG1+jwNlUdlF6dVeN4cLBsxSc=";

  };

  postPatch = ''

  postPatch =

    # remove error messages about tput during build process without adding ncurses

    ''

      substituteInPlace configure \

        --replace-fail 'tput setaf $1' : \

        --replace-fail 'tput sgr0' :

    ''

    +

    # hardcode path to graphviz library to avoid find_library, which would require setting LD_LIBRARY_PATH

    ''

      substituteInPlace src/graph_tool/draw/graphviz_draw.py \

        --replace-fail \

          'ctypes.util.find_library("gvc")' \

          '"${lib.getLib graphviz}/lib/libgvc${stdenv.hostPlatform.extensions.sharedLibrary}"'

    '';

  configureFlags = [

    "--with-python-module-path=$(out)/${python.sitePackages}"

    "--with-boost-libdir=${boost'}/lib"

    "--with-cgal=${cgal}"

  ];

  configureFlags =

    lib.mapAttrsToList (lib.withFeatureAs true) {

      boost-libdir = "${lib.getLib boost'}/lib";

      cgal = lib.getDev cgal;

      python-module-path = "$(out)/${python.sitePackages}";

    }

    ++

      lib.optionals stdenv.cc.isGNU

        # enable GCC's link-time optimizer in order to reduce compilation time and memory usage during compilation

        # https://graph-tool.skewed.de/installation.html#memory-requirements-for-compilation

        # https://git.skewed.de/count0/graph-tool/-/issues/798#note_5626

        [ "MOD_CXXFLAGS=-flto" ];

  enableParallelBuilding = true;

  build-system = [ pkg-config ];

  nativeBuildInputs = [ pkg-config ];

  # https://graph-tool.skewed.de/installation.html#manual-compilation

  dependencies = [

  buildInputs = [

    boost'

    cairomm

    cgal

    expat

    gmp

    gobject-introspection

    mpfr

    sparsehash

  ]

  ++ lib.optionals stdenv.cc.isClang [ llvmPackages.openmp ];

  dependencies = [

    gtk3

    matplotlib

    mpfr

    numpy

    pycairo

    pygobject3

    scipy

    sparsehash

  ]

  ++ lib.optionals stdenv.cc.isClang [ llvmPackages.openmp ];

    zstandard

  ];

  propagatedNativeBuildInputs = [ gobject-introspection ];

  preInstallCheck =

    # avoid warnings about Matplotlib and Fontconfig configuration issues

    ''

      export HOME=$(mktemp -d)

      export FONTCONFIG_FILE=${fontconfig.out}/etc/fonts/fonts.conf

    '';

  pythonImportsCheck = [ "graph_tool" ];

  pythonImportsCheck = [ "graph_tool.all" ];

  passthru.updateScript = gitUpdater {

    url = "https://git.skewed.de/count0/graph-tool";

  granian = callPackage ../development/python-modules/granian { };

  graph-tool = callPackage ../development/python-modules/graph-tool { inherit (pkgs) cgal; };

  graph-tool = callPackage ../development/python-modules/graph-tool { inherit (pkgs) cgal graphviz; };

  grapheme = callPackage ../development/python-modules/grapheme { };