diff options
Diffstat (limited to 'nixpkgs/pkgs/development/libraries/science/math/fenics/default.nix')
| -rw-r--r-- | nixpkgs/pkgs/development/libraries/science/math/fenics/default.nix | 261 |
1 files changed, 261 insertions, 0 deletions
diff --git a/nixpkgs/pkgs/development/libraries/science/math/fenics/default.nix b/nixpkgs/pkgs/development/libraries/science/math/fenics/default.nix new file mode 100644 index 000000000000..e80607ab9556 --- /dev/null +++ b/nixpkgs/pkgs/development/libraries/science/math/fenics/default.nix @@ -0,0 +1,261 @@ +{ lib, stdenv +, fetchurl +, fetchpatch +, boost +, cmake +, doxygen +, eigen +, mpi4py +, numpy +, pkg-config +, pybind11 +, pytest +, pythonPackages +, six +, sympy +, gtest +, hdf5 +, mpi +, ply +, python +, scotch +, setuptools +, sphinx +, suitesparse +, swig +, zlib +, blas +, lapack +}: +let + version = "2019.1.0"; + + dijitso = pythonPackages.buildPythonPackage { + pname = "dijitso"; + inherit version; + src = fetchurl { + url = "https://bitbucket.org/fenics-project/dijitso/downloads/dijitso-${version}.tar.gz"; + sha256 = "1ncgbr0bn5cvv16f13g722a0ipw6p9y6p4iasxjziwsp8kn5x97a"; + }; + propagatedBuildInputs = [ numpy six ]; + checkInputs = [ pytest ]; + preCheck = '' + export HOME=$PWD + ''; + checkPhase = '' + runHook preCheck + py.test test/ + runHook postCheck + ''; + meta = { + description = "Distributed just-in-time shared library building"; + homepage = "https://fenicsproject.org/"; + platforms = lib.platforms.all; + license = lib.licenses.lgpl3; + }; + }; + + fiat = pythonPackages.buildPythonPackage { + pname = "fiat"; + inherit version; + src = fetchurl { + url = "https://bitbucket.org/fenics-project/fiat/downloads/fiat-${version}.tar.gz"; + sha256 = "1sbi0fbr7w9g9ajr565g3njxrc3qydqjy3334vmz5xg0rd3106il"; + }; + propagatedBuildInputs = [ numpy six sympy ]; + checkInputs = [ pytest ]; + + preCheck = '' + # Workaround pytest 4.6.3 issue. + # See: https://bitbucket.org/fenics-project/fiat/pull-requests/59 + rm test/unit/test_quadrature.py + rm test/unit/test_reference_element.py + rm test/unit/test_fiat.py + ''; + checkPhase = '' + runHook preCheck + py.test test/unit/ + runHook postCheck + ''; + meta = { + description = "Automatic generation of finite element basis functions"; + homepage = "https://fenicsproject.org/"; + platforms = lib.platforms.all; + license = lib.licenses.lgpl3; + }; + }; + + ufl = pythonPackages.buildPythonPackage { + pname = "ufl"; + inherit version; + src = fetchurl { + url = "https://bitbucket.org/fenics-project/ufl/downloads/ufl-${version}.tar.gz"; + sha256 = "04daxwg4y9c51sdgvwgmlc82nn0fjw7i2vzs15ckdc7dlazmcfi1"; + }; + propagatedBuildInputs = [ numpy six ]; + checkInputs = [ pytest ]; + checkPhase = '' + runHook preCheck + py.test test/ + runHook postCheck + ''; + meta = { + description = "A domain-specific language for finite element variational forms"; + homepage = "https://fenicsproject.org/"; + platforms = lib.platforms.all; + license = lib.licenses.lgpl3; + }; + }; + + ffc = pythonPackages.buildPythonPackage { + pname = "ffc"; + inherit version; + src = fetchurl { + url = "https://bitbucket.org/fenics-project/ffc/downloads/ffc-${version}.tar.gz"; + sha256 = "1zdg6pziss4va74pd7jjl8sc3ya2gmhpypccmyd8p7c66ji23y2g"; + }; + nativeBuildInputs = [ + pybind11 + ]; + propagatedBuildInputs = [ + dijitso + fiat + numpy + six + sympy + ufl + setuptools + ]; + checkInputs = [ pytest ]; + preCheck = '' + export HOME=$PWD + rm test/unit/ufc/finite_element/test_evaluate.py + ''; + checkPhase = '' + runHook preCheck + py.test test/unit/ + runHook postCheck + ''; + meta = { + description = "A compiler for finite element variational forms"; + homepage = "https://fenicsproject.org/"; + platforms = lib.platforms.all; + license = lib.licenses.lgpl3; + }; + }; + dolfin = stdenv.mkDerivation { + pname = "dolfin"; + inherit version; + src = fetchurl { + url = "https://bitbucket.org/fenics-project/dolfin/downloads/dolfin-${version}.tar.gz"; + sha256 = "0kbyi4x5f6j4zpasch0swh0ch81w2h92rqm1nfp3ydi4a93vky33"; + }; + patches = [ + (fetchpatch { + name = "fix-double-prefix.patch"; + url = "https://bitbucket.org/josef_kemetmueller/dolfin/commits/328e94acd426ebaf2243c072b806be3379fd4340/raw"; + sha256 = "1zj7k3y7vsx0hz3gwwlxhq6gdqamqpcw90d4ishwx5ps5ckcsb9r"; + }) + ]; + propagatedBuildInputs = [ + dijitso + fiat + numpy + six + ufl + ]; + nativeBuildInputs = [ + cmake + doxygen + pkg-config + ]; + buildInputs = [ + boost + dijitso + eigen + ffc + fiat + hdf5 + mpi + numpy + blas + lapack + ply + python + scotch + six + sphinx + suitesparse + swig + sympy + ufl + zlib + ]; + cmakeFlags = [ + "-DDOLFIN_CXX_FLAGS=-std=c++11" + "-DDOLFIN_AUTO_DETECT_MPI=ON" + "-DDOLFIN_ENABLE_CHOLMOD=ON" + "-DDOLFIN_ENABLE_DOCS=ON" + "-DDOLFIN_ENABLE_HDF5=ON" + "-DDOLFIN_ENABLE_MPI=ON" + "-DDOLFIN_ENABLE_SCOTCH=ON" + "-DDOLFIN_ENABLE_UMFPACK=ON" + "-DDOLFIN_ENABLE_ZLIB=ON" + "-DDOLFIN_SKIP_BUILD_TESTS=ON" # Otherwise SCOTCH is not found + # TODO: Enable the following features + "-DDOLFIN_ENABLE_PARMETIS=OFF" + "-DDOLFIN_ENABLE_PETSC=OFF" + "-DDOLFIN_ENABLE_SLEPC=OFF" + "-DDOLFIN_ENABLE_TRILINOS=OFF" + ]; + installCheckPhase = '' + source $out/share/dolfin/dolfin.conf + make runtests + ''; + meta = { + description = "The FEniCS Problem Solving Environment in Python and C++"; + homepage = "https://fenicsproject.org/"; + license = lib.licenses.lgpl3; + }; + }; + python-dolfin = pythonPackages.buildPythonPackage rec { + pname = "dolfin"; + inherit version; + disabled = pythonPackages.isPy27; + src = dolfin.src; + sourceRoot = "${pname}-${version}/python"; + nativeBuildInputs = [ + pybind11 + cmake + ]; + dontUseCmakeConfigure = true; + preConfigure = '' + export CMAKE_PREFIX_PATH=${pybind11}/share/cmake/pybind11:$CMAKE_PREFIX_PATH + substituteInPlace setup.py --replace "pybind11==2.2.4" "pybind11" + substituteInPlace dolfin/jit/jit.py \ + --replace 'pkg-config.exists("dolfin")' 'pkg-config.exists("${dolfin}/lib/pkgconfig/dolfin.pc")' \ + --replace 'pkg-config.parse("dolfin")' 'pkg-config.parse("${dolfin}/lib/pkgconfig/dolfin.pc")' + ''; + buildInputs = [ + dolfin + boost + ]; + + propagatedBuildInputs = [ + dijitso + ffc + mpi4py + numpy + ufl + pythonPackages.pkgconfig + pythonPackages.pybind11 + ]; + doCheck = false; # Tries to orte_ess_init and call ssh to localhost + meta = { + description = "Python bindings for the DOLFIN FEM compiler"; + homepage = "https://fenicsproject.org/"; + platforms = lib.platforms.all; + license = lib.licenses.lgpl3; + }; + }; +in python-dolfin |