ngsPETSc

ngsPETSc is a PETSc interface for NGSolve.

Installation

To install ngsPETSc you need to clone the GitHub repository, and then you can install it using pip.

git clone https://github.com/UZerbinati/ngsPETSc.git
cd ngsPETSc
pip install .

You can also build PETSc, SLEPc and NGSolve from source and then install ngsPETSc. First we install all the needed package using apt and pip or an equivalent package manager.

apt-get update
apt-get -y install git build-essential cmake python3 python3-distutils python3-tk libpython3-dev libxmu-dev tk-dev tcl-dev g++ libglu1-mesa-dev liblapacke-dev libblas-dev liblapack-dev
pip install numpy cython pytest pytest-mpi

We now install PETSc from scratch in a home installation folder, with OpenMPI, HYPRE, Metis, MUMPS, SuprLU, Scalapack and eigen.

git clone https://gitlab.com/petsc/petsc.git
cd petsc
python configure --download-chaco \
--download-cmake \
--download-eigen \
--download-openmpi \
--download-hypre \
--download-metis \
--download-parmetis \
--download-ml \
--download-mumps \
--download-scalapack \
--download-superlu_dist \
--with-c2html=0 \
--with-cxx-dialect=C++11 \
--with-debugging=0 \
--download-fblaslapack=1 \
--with-fortran-bindings=0 \
--with-shared-libraries=1 \
--with-petsc4py=1 \

To build PETSc you need to run the Makefile as suggested at the end of the configuration script. We now need to set in the .bashrc (for MacOS user .bash_profile) file the PETSC_DIR, PETSC_ARCH system variable as they appear when we finish build PETSc. You also need to add to your PYTHONPATH the PYTHONPATH appear when we finished building PETSc. We also suggest adding the following line to you .bashrc the following lines:

export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$PETSC_DIR/$PETSC_ARCH/lib
export PATH=$PATH:$PETSC_DIR/$PETSC_ARCH/bin

We now install SLEPc from source once again in the home installation folder

git clone https://gitlab.com/slepc/slepc.git
cd slepc
python configure --download-blopex --with-slepc4py=1

To build SLEPc you need to run the Makefile as suggested at the end of the configuration script. We now need to set in the .bashrc (for MacOS user .bash_profile) file the SLEPC_DIR system variable as they appear when we finish build PETSc. You also need to add to your PYTHONPATH the PYTHONPATH appear when we finished building SLEPc. We now build mpi4py form source (once again in our home installation folder) in order to have a mpi4py installation that uses PETSc’s local MPI installation.

git clone https://github.com/mpi4py/mpi4py.git
cd mpi4py
pip install .

Now we are left building NGSolve from sources, once again in the home installation directory.

export BASEDIR=$PWD/ngsuite
mkdir -p $BASEDIR
cd $BASEDIR
git clone https://github.com/NGSolve/ngsolve.git ngsolve-src
cd $BASEDIR/ngsolve-src
git submodule update --init --recursive
mkdir $BASEDIR/ngsolve-build
mkdir $BASEDIR/ngsolve-install
cd $BASEDIR/ngsolve-build
cmake -DCMAKE_INSTALL_PREFIX=${BASEDIR}/ngsolve-install ${BASEDIR}/ngsolve-src -DUSE_MPI=ON
make
make install

You should add to your .bashrc the BASEDIR system variable:

echo "export $BASEDIR=${BASEDIR}" >> ~/.bashrc

We suggest you adding following lines to your .bashrc:

export NETGENDIR="${BASEDIR}/ngsolve-install/bin"
export PATH=$NETGENDIR:$PATH
export PYTHONPATH=$PYTHONPATH:$NETGENDIR/../`python3 -c "from distutils.sysconfig import get_python_lib; print(get_python_lib(1,0,''))"`

We are now fianlly ready to install ngsPETSc:

git clone https://github.com/UZerbinati/ngsPETSc.git
cd ngsPETSc
NGSPETSC_NO_INSTALL_REQUIRED=ON pip install .

ngsPETSc

Installation

Authors

License

API