GPC MPI Versions
OpenMPI
To use OpenMPI compiled with intel load the modules
module load openmpi intel
or for the gcc version use
module load openmpi/1.3.3-gcc-v4.4.0-ofed gcc
The MPI libraries wrappers for compiling are mpicc/mpicxx/mpif90/mpif77.
OpenMPI has been build to support various communication methods and automatically uses the best method depending on how and where it is run. To explicitly specify the method you can use the following --mca flags on ethernet
mpirun --mca btl self,sm,tcp -np 16 -hostfile $PBS_NODEFILE ./a.out
and the following for infiniband
mpirun --mca btl self,sm,openib -np 16 -hostfile $PBS_NODEFILE ./a.out
For more information on available flags see the OpenMPI FAQ
MVAPICH2
MVAPICH2 is an MPICH2 derivative primarily designed for MPI communications over Infiniband. To use MVAPICH2 compiled with the intel compilers for infiniband load the modules
module load mvapich2 intel
or for the ethernet version use
module load mvapich2/1.4rc1-3378_intel-v11.0-tcpip intel
The MPI libraries wrappers for compiling are mpicc/mpicxx/mpif90/mpif77.
MVAPICH2 requires a .mpd.conf<\tt> file containing the variable "MPD_SECRETWORD=..." in your $HOME directory. To create this file use
echo "MPD_SECRETWORD=ABC123" > ~/.mpd.conf chmod 600 ~/.mpd.conf
The easiest way to run is to use mpirun_rsh as follows
mpirun_rsh -np 16 -hostfile $PBS_NODEFILE ./a.out