*Hello,
I am trying to run valgrind in parallel, but somehow I am unable to. At
times, it says that it does not detect the command, when I use:
CMD = valgrind - -tool = memcheck $HOME/TSDFT/tsdtf
it does not recognize the command.
And, sometimes, it says that valgrind can be run only on 1 processor.
Is there a fix? Please find below my parallel job script with MPIEXEC.*
*Thanks a lot.
Best Regards,
Alex*
*
*
#!/bin/bash
#$ -cwd
#$ -N short_eq_32
#$ -pe openmpi 32
##############################
#####################
source /usr/share/Modules/init/sh
export -n -f module
# Load the environment modules for this job (the order may be important):
module add intel/intel-12.1_intel64
module add mpi/openmpi-1.4.3-intel-12.1
###################################################
# Set the environment variables:
MPIEXEC=$OPENMPI/bin/mpiexec
# OPENMPI is set by the mpi/openmpi-1.4.3:rt OMP_NUM_THREADS=1
export OMPI_MCA_btl='openib,sm,self'
# export OMPI_MCA_orte_process_binding=core
##############
# BEGIN DEBUG
# Print the SGE environment on master host:
echo "================================================================"
echo "=== SGE job JOB_NAME=$JOB_NAME JOB_ID=$JOB_ID"
echo "================================================================"
echo DATE=`date`
echo HOSTNAME=`hostname`
echo PWD=`pwd`
echo "NSLOTS=$NSLOTS"
echo "PE_HOSTFILE=$PE_HOSTFILE"
cat $PE_HOSTFILE
echo "Machinefile created by openmpi PE $TMPDIR/machines:"
cat $TMPDIR/machines
echo "================================================================"
echo "Running environment:"
env
echo "================================================================"
echo "Loaded environment modules:"
module list 2>&1
echo
# END DEBUG
##############
###################################################
# The command to run with mpiexec:
# CMD=$HOME/bin/xhpl-OpenMPI_Intel-12.1
*CMD=$HOME/TSDFT/tsdtf*
ARGS=''
##############
# BEGIN DEBUG
# Check that the libraries are available (on the master host):
echo "ldd $CMD"
ldd $CMD
echo "LD_LIBRARY_PATH=$LD_LIBRARY_PATH"
# Check the number of threads used by OpenMP:
echo "OMP_NUM_THREADS=$OMP_NUM_THREADS"
# END DEBUG
##############
# The MPI command to run:
MPICMD="$MPIEXEC --prefix $OPENMPI -x LD_LIBRARY_PATH -x OMP_NUM_THREADS -x
OMPI_MCA_btl -np $NSLOTS -machinefile $TMPDIR/machines $CMD $ARGS"
echo "Command to run:"
echo "$MPICMD"
echo
$MPICMD
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