8.2 ¶

Installation date: 06/03/2017
URL: https://www.csc.fi/web/elmer
Apolo version: Apolo II
License: LGPL license

Table of contents

8.2

Pre requirements ¶

Intel Parell Studio XE Cluster Edition 2017 - Update 1 (Compilers, MPI, Math Libraries)
Hypre >= 2.10.1
Cmake >= 3.7.1

Installation ¶

Download the latest version of the software (Github) (https://github.com/ElmerCSC/elmerfem):

cd /home/mgomezzul/apps/elmer/src/intel
mkdir elmer
cd elmer
git clone git://www.github.com/ElmerCSC/elmerfem+
mkdir build
cd build

To continue with the installation we must continue with the following configuration and compilation steps using cmake:

sudo mkdir -p /share/apps/elmer/8.2/intel_impi/2017_update-1
sudo chown -R $USER.apolo /share/apps/elmer/8.2/intel_impi/2017_update-1
cmake .. -DCMAKE_INSTALL_PREFIX=/share/apps/elmer/8.2/intel_impi/2017_update-1 -DWITH_MPI:BOOL=TRUE  -DWITH_ELMERGUI:BOOL=FALSE -DWITH_OpenMP:BOOL=TRUE -DCMAKE_BUILD_TYPE=Release -DMPI_TEST_MAXPROC=16 -DWITH_ElmerIce:BOOL=TRUE -DWITH_Hypre:BOOL=TRUE -DWITH_MKL:BOOL=TRUE  -DHypre_LIBRARIES=/share/apps/hypre/2.10.1/intel_impi/2017_update-1/lib/libHYPRE.so  -DHypre_INCLUDE_DIR=/share/apps/hypre/2.10.1/intel_impi/2017_update-1/include 2>&1 | tee elmer-cmake.log
make 2>&1 | tee elmer-make.log
make install 2>&1 | tee elmer-make-install.log
sudo chown -R root.root /share/apps/elmer/8.2/intel_impi/2017_update-1

Module ¶

#%Module1.0#####################################################################
##
## modules load elmer/8.2_intel_impi_mkl-2017_update-1
##
## /share/apps/modules/elmer/8.2_intel_impi_mkl-2017_update-1  Written by Mateo Gomez-Zulauga
##

proc ModulesHelp { } {2
        puts stderr "\tSets the environment for Elmer 8.2 in the following \
                    \n\tdirectory /share/apps/elmer/8.2/intel_impi/2017_update-1\n"
}

module-whatis "\n\n\tSets the environment for using Elmer 8.2 \
            \n\tbuilded with Intel Parallel Studio XE Cluster Edition 2017 Update 1\n"


# for Tcl script use only
set         topdir     /share/apps/elmer/8.2/intel_impi/2017_update-1/
set         version    8.2
set     sys        x86_64-redhat-linux

conflict elmer
module load hypre/2.10.1_intel_impi_2017_update-1

prepend-path PATH           $topdir/bin

prepend-path LD_LIBRARY_PATH    $topdir/lib
prepend-path LIBRARY_PATH       $topdir/lib
prepend-path LD_RUN_PATH        $topdir/lib

prepend-path C_INCLUDE_PATH     $topdir/include
prepend-path CXX_INCLUDE_PATH   $topdir/include
prepend-path CPLUS_INCLUDE_PATH $topdir/include

setenv           ELMER_HOME         $topdir
setenv           ELMER_LIB          $topdir/lib

Mode of Use ¶

Load the necessary environment through the module:

module load elmer/8.2_intel_impi_mkl-2017_update-1

Slurm template ¶

#!/bin/sh
#SBATCH --partition=longjobs
#SBATCH --nodes=1
#SBATCH --ntasks-per-node=32
#SBATCH --time=1-00
#SBATCH --job-name=elmer_test
#SBATCH -o result_%N_%j.out
#SBATCH -e result_%N_%j.err
#SBATCH --mail-type=END,FAIL
#SBATCH --mail-user=dtobone@eafit.edu.co


# Don't share environment variables
export SBATCH_EXPORT=NONE
export OMP_NUM_THREADS=1

module load elmer/8.2_intel_impi_mkl-2017_update-1

ElmerGrid 2 2 mesh -metis $SLURM_NTASKS 4
srun ElmerSolver_mpi

References ¶

Author ¶

Mateo Gómez Zuluaga