Hi, Jeff,
Thanks. For bsub -e ERR -o OUT -n 16 openmpi-mpirun /bin/sh -c "ulimit
-s unlimited; ./wrf.exe", I tried and wrf.exe doesn't executed.
Here is the content of openmpi-mpirun file, so maybe something needs to
be changed?
----------------------------------------------
#!/bin/sh
#
# Copyright (c) 2007 Platform Computing
#
# This script is a wrapper for openmpi mpirun
# it generates the machine file based on the hosts
# given to it by Lava.
#
usage() {
cat <<USEEOF
USAGE: $0
This command is a wrapper for mpirun (openmpi). It can
only be run within Lava using bsub e.g.
bsub -n # "$0 -np # {my mpi command and args}"
The wrapper will automatically generate the
machinefile used by mpirun.
NOTE: The list of hosts cannot exceed 4KBytes.
USEEOF
}
if [ x"${LSB_JOBFILENAME}" = x -o x"${LSB_HOSTS}" = x ]; then
usage
exit -1
fi
MYARGS=$*
WORKDIR=`dirname ${LSB_JOBFILENAME}`
MACHFILE=${WORKDIR}/mpi_machines
ARGLIST=${WORKDIR}/mpi_args
# Check if mpirun is in the PATH
T=`which mpirun`
if [ $? -ne 0 ]; then
echo "Error: mpirun is not in your PATH."
exit -2
fi
echo "${MYARGS}" > ${ARGLIST}
T=`grep -- -machinefile ${ARGLIST} |wc -l`
if [ $T -gt 0 ]; then
echo "Error: Do not provide the machinefile for mpirun."
echo " It is generated automatically for you."
exit -3
fi
# Make the open-mpi machine file
echo "${LSB_HOSTS}" > ${MACHFILE}.lst
tr '\/ ' '\r\n' < ${MACHFILE}.lst > ${MACHFILE}
MPIRUN=`which --skip-alias mpirun`
${MPIRUN} -x LD_LIBRARY_PATH -machinefile ${MACHFILE} ${MYARGS}
exit $?
----------------------------------------------
Cheers,
Min Zhu
-----Original Message-----
From: users-bounces_at_[hidden] [mailto:users-bounces_at_[hidden]] On
Behalf Of Jeff Squyres
Sent: 17 December 2009 14:29
To: Open MPI Users
Subject: Re: [OMPI users] About openmpi-mpirun
On Dec 17, 2009, at 9:15 AM, Min Zhu wrote:
> Thanks for your reply. Yes, your mpirun command works for me. But I
need to use bsub job scheduler. I wonder why
> bsub -e ERR -o OUT -n 16 openmpi-mpirun "/bin/sh -c ulimit -s
unlimited; ./wrf.exe" doesn't work.
Try with different quoting...? I don't know the details of the
openmpi-mpirun script, but perhaps it's trying to exec the whole quoted
string as a single executable (which doesn't exist). Perhaps:
bsub -e ERR -o OUT -n 16 openmpi-mpirun /bin/sh -c "ulimit -s unlimited;
./wrf.exe"
That's a (somewhat educated) guess...
--
Jeff Squyres
jsquyres_at_[hidden]
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