EUROPLEXUS â MPI Version at the JRC - European Laboratory for ...

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1 IntroductionThe explicit Finite Element code EUROPLEXUS is written for the calculation of fast dynamicfluid-structure interactions. This code has been developed in collaboration between the FrenchCommissariat à l'Energie Atomique (CEA Saclay) and the Joint Research Centre of the EuropeanUnion (JRC Ispra).In recent years, the use of multi-processor machines has become more and more popular especiallyusing the Linux operating system. But also under Windows more and more CPU-consumingprograms are running on more than one thread. While OpenMP (shared memory) can mainly onlybe used on one machine, MPI (distributed memory) calculations are possible also on much biggercluster systems. The EUROPLEXUS code was adapted to MPI calculations in recent years at CEAfor their Linux cluster system. This technical note presents the developments for MPI underWindows at JRC and the adaptation of the compilation and running procedures to the new JRCHPC Linux cluster.The description of OpenMP and MPI can be found in the following specifications:• http://www.openmp.org/mp-documents/spec30.pdf• http://www.mpi-forum.org/docs/mpi21-report.pdf4
2 MPI-Version of EUROPLEXUS under WindowsThere are several implementations of the MPI package available under Windows. Here used is thepackage MPICH2, which is developed by the Argonne National Laboratory in collaboration withseveral partners. MPICH2 is a high-performance and widely portable implementation of theMessage Passing Interface (MPI) standard, which supports different computation platforms. Theprogram is OpenSource an can be downloaded from:http://www.mcs.anl.gov/research/projects/mpich2/index.php2.1 InstallationThis program has to be installed (administrator rights are needed) on each machine, where one thepart of the calculation should be performed. The Windows version of the code uses the MicrosoftInstaller and is therefore self-installing.After installation (a password has to be defined to access the machine through the network) one canfind in the Start menu a new folder, which contains a small wmpiconfig program for theconfiguration of the environment. For example, with this tool the other computers in the networkcan be added to the environment.More important is the tool wmpiexec, which can be used to start the calculation of the MPIversion of the code. This is described later.2.2 CompilationThe following list describes the “manual” compilation of EUROPLEXUS for MPI under Windows.Note however that an up-to-date MPI version for Windows is automatically compiled each night onthe EUROPLEXUS server at the JRC.1. Take all the source files using the module M_DOMAINE_MPIepx_grep –g M_DOMAINE_MPI2. Comment out the call to ParMetis in the source file part_auto.ff. This is needed since theParMetis library (a library for automatic CPU load balancing) is not available underWindows.3. Compile all these files using epx_cmp –M.4. Link the files using epx_lk -M.5
Page 1 and 2: EUROPLEXUS -MPI Version at the JRCM
Page 3: CONTENTS1 Introduction ............
Page 7 and 8: 2.4 Scriptsepx_cmpThe utility epx_c
Page 9 and 10: 3 MPI on the Linux Cluster3.1 New J
Page 11 and 12: • Biblio: contains the executable
Page 13 and 14: -np introduces the number of proces
Page 15 and 16: 4 BenchmarksThe speed up of the MPI
Page 17 and 18: 5 References[1] EUROPLEXUS, User’
Page 19 and 20: case $1 in-h) echo "Usage: $0 [-nob
Page 21 and 22: compiler_tous_o0#! /bin/sh### Ce sh
Page 23 and 24: echo " -essaiUse of testexecutable"
Page 25 and 26: -np) shift ; nproc=$1 ; shift ;;-da
Page 27 and 28: if [ $LECR == "1" ] ; thenechoecho
Page 29 and 30: v1 = a_rand volu 'TRAN' p1;v1 = v1
Page 31: The mission of the JRC is to provid

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