280 lines
7.4 KiB
Nix
280 lines
7.4 KiB
Nix
{ lib, stdenv
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, fetchurl
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, fetchpatch
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, blas
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, boost
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, cmake
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, doxygen
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, eigen
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, gtest
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, hdf5
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, lapack
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, mpi
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, mpi4py
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, numpy
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, pkg-config
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, ply
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, pybind11
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, pytest
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, python
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, pythonPackages
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, scotch
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, setuptools
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, six
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, sphinx
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, suitesparse
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, swig
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, sympy
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, zlib
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, nixosTests
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}:
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let
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version = "2019.1.0";
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dijitso = pythonPackages.buildPythonPackage {
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pname = "dijitso";
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inherit version;
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src = fetchurl {
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url = "https://bitbucket.org/fenics-project/dijitso/downloads/dijitso-${version}.tar.gz";
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sha256 = "1ncgbr0bn5cvv16f13g722a0ipw6p9y6p4iasxjziwsp8kn5x97a";
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};
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propagatedBuildInputs = [ numpy six ];
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nativeCheckInputs = [ pytest ];
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preCheck = ''
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export HOME=$PWD
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'';
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checkPhase = ''
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runHook preCheck
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py.test test/
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runHook postCheck
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'';
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meta = {
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description = "Distributed just-in-time shared library building";
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homepage = "https://fenicsproject.org/";
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platforms = lib.platforms.all;
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license = lib.licenses.lgpl3;
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};
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};
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fiat = pythonPackages.buildPythonPackage {
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pname = "fiat";
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inherit version;
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src = fetchurl {
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url = "https://bitbucket.org/fenics-project/fiat/downloads/fiat-${version}.tar.gz";
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sha256 = "1sbi0fbr7w9g9ajr565g3njxrc3qydqjy3334vmz5xg0rd3106il";
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};
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propagatedBuildInputs = [ numpy six sympy ];
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nativeCheckInputs = [ pytest ];
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preCheck = ''
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# Workaround pytest 4.6.3 issue.
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# See: https://bitbucket.org/fenics-project/fiat/pull-requests/59
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rm test/unit/test_quadrature.py
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rm test/unit/test_reference_element.py
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rm test/unit/test_fiat.py
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# Fix `np.float` deprecation in Numpy 1.20
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grep -lr 'np.float(' test/ | while read -r fn; do
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substituteInPlace "$fn" \
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--replace "np.float(" "np.float64("
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done
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'';
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checkPhase = ''
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runHook preCheck
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py.test test/unit/
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runHook postCheck
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'';
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meta = {
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description = "Automatic generation of finite element basis functions";
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homepage = "https://fenicsproject.org/";
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platforms = lib.platforms.all;
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license = lib.licenses.lgpl3;
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};
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};
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ufl = pythonPackages.buildPythonPackage {
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pname = "ufl";
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inherit version;
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src = fetchurl {
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url = "https://bitbucket.org/fenics-project/ufl/downloads/ufl-${version}.tar.gz";
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sha256 = "04daxwg4y9c51sdgvwgmlc82nn0fjw7i2vzs15ckdc7dlazmcfi1";
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};
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propagatedBuildInputs = [ numpy six ];
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nativeCheckInputs = [ pytest ];
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checkPhase = ''
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runHook preCheck
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py.test test/
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runHook postCheck
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'';
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meta = {
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description = "A domain-specific language for finite element variational forms";
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homepage = "https://fenicsproject.org/";
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platforms = lib.platforms.all;
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license = lib.licenses.lgpl3;
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};
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};
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ffc = pythonPackages.buildPythonPackage {
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pname = "ffc";
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inherit version;
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src = fetchurl {
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url = "https://bitbucket.org/fenics-project/ffc/downloads/ffc-${version}.tar.gz";
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sha256 = "1zdg6pziss4va74pd7jjl8sc3ya2gmhpypccmyd8p7c66ji23y2g";
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};
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nativeBuildInputs = [
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pybind11
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];
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propagatedBuildInputs = [
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dijitso
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fiat
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numpy
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six
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sympy
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ufl
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setuptools
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];
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nativeCheckInputs = [ pytest ];
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preCheck = ''
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export HOME=$PWD
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rm test/unit/ufc/finite_element/test_evaluate.py
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'';
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checkPhase = ''
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runHook preCheck
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py.test test/unit/
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runHook postCheck
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'';
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meta = {
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description = "A compiler for finite element variational forms";
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homepage = "https://fenicsproject.org/";
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platforms = lib.platforms.all;
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license = lib.licenses.lgpl3;
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};
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};
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dolfin = stdenv.mkDerivation {
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pname = "dolfin";
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inherit version;
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src = fetchurl {
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url = "https://bitbucket.org/fenics-project/dolfin/downloads/dolfin-${version}.tar.gz";
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sha256 = "0kbyi4x5f6j4zpasch0swh0ch81w2h92rqm1nfp3ydi4a93vky33";
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};
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patches = [
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(fetchpatch {
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name = "fix-double-prefix.patch";
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url = "https://bitbucket.org/josef_kemetmueller/dolfin/commits/328e94acd426ebaf2243c072b806be3379fd4340/raw";
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sha256 = "1zj7k3y7vsx0hz3gwwlxhq6gdqamqpcw90d4ishwx5ps5ckcsb9r";
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})
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(fetchpatch {
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url = "https://bitbucket.org/fenics-project/dolfin/issues/attachments/1116/fenics-project/dolfin/1602778118.04/1116/0001-Use-__BYTE_ORDER__-instead-of-removed-Boost-endian.h.patch";
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hash = "sha256-wPaDmPU+jaD3ce3nNEbvM5p8e3zBdLozamLTJ/0ai2c=";
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})
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];
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# https://aur.archlinux.org/cgit/aur.git/plain/PKGBUILD?h=dolfin&id=a965ad934f7b3d49a5e77fa6fb5e3c710ec2163e
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postPatch = ''
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sed -i '20 a #include <algorithm>' dolfin/geometry/IntersectionConstruction.cpp
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sed -i '26 a #include <algorithm>' dolfin/mesh/MeshFunction.h
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sed -i '25 a #include <cstdint>' dolfin/mesh/MeshConnectivity.h
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'';
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propagatedBuildInputs = [
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dijitso
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fiat
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numpy
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six
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ufl
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];
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nativeBuildInputs = [
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cmake
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doxygen
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pkg-config
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];
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buildInputs = [
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boost
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dijitso
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eigen
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ffc
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fiat
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hdf5
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mpi
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numpy
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blas
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lapack
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ply
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python
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scotch
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six
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sphinx
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suitesparse
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swig
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sympy
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ufl
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zlib
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];
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cmakeFlags = [
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"-DDOLFIN_CXX_FLAGS=-std=c++11"
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"-DDOLFIN_AUTO_DETECT_MPI=ON"
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"-DDOLFIN_ENABLE_CHOLMOD=ON"
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"-DDOLFIN_ENABLE_DOCS=ON"
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"-DDOLFIN_ENABLE_HDF5=ON"
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"-DDOLFIN_ENABLE_MPI=ON"
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"-DDOLFIN_ENABLE_SCOTCH=ON"
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"-DDOLFIN_ENABLE_UMFPACK=ON"
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"-DDOLFIN_ENABLE_ZLIB=ON"
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"-DDOLFIN_SKIP_BUILD_TESTS=ON" # Otherwise SCOTCH is not found
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# TODO: Enable the following features
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"-DDOLFIN_ENABLE_PARMETIS=OFF"
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"-DDOLFIN_ENABLE_PETSC=OFF"
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"-DDOLFIN_ENABLE_SLEPC=OFF"
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"-DDOLFIN_ENABLE_TRILINOS=OFF"
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];
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installCheckPhase = ''
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source $out/share/dolfin/dolfin.conf
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make runtests
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'';
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meta = {
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description = "The FEniCS Problem Solving Environment in Python and C++";
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homepage = "https://fenicsproject.org/";
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license = lib.licenses.lgpl3;
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};
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};
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python-dolfin = pythonPackages.buildPythonPackage rec {
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pname = "dolfin";
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inherit version;
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disabled = pythonPackages.isPy27;
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src = dolfin.src;
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sourceRoot = "${pname}-${version}/python";
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nativeBuildInputs = [
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pybind11
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cmake
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];
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dontUseCmakeConfigure = true;
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preConfigure = ''
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export CMAKE_PREFIX_PATH=${pybind11}/share/cmake/pybind11:$CMAKE_PREFIX_PATH
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substituteInPlace setup.py --replace "pybind11==2.2.4" "pybind11"
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substituteInPlace dolfin/jit/jit.py \
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--replace 'pkgconfig.exists("dolfin")' 'pkgconfig.exists("${dolfin}/lib/pkgconfig/dolfin.pc")' \
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--replace 'pkgconfig.parse("dolfin")' 'pkgconfig.parse("${dolfin}/lib/pkgconfig/dolfin.pc")'
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'';
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buildInputs = [
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dolfin
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boost
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];
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propagatedBuildInputs = [
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dijitso
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ffc
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mpi4py
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numpy
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ufl
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pythonPackages.pkgconfig
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pythonPackages.pybind11
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];
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doCheck = false; # Tries to orte_ess_init and call ssh to localhost
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passthru.tests = { inherit (nixosTests) fenics; };
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meta = {
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description = "Python bindings for the DOLFIN FEM compiler";
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homepage = "https://fenicsproject.org/";
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platforms = lib.platforms.all;
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license = lib.licenses.lgpl3;
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};
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};
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in python-dolfin
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