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Subject: [OMPI users] two jobs in a single mpirun command and MPI_COMM_WORLD issue ...
From: Ufuk Utku Turuncoglu (BE) (u.utku.turuncoglu_at_[hidden])
Date: 2012-06-21 03:28:42


Hi,

I try to submit two MPI jobs using single OpenMPI mpirun command
(command can be seen in job submission script). To test this
configuration, i compiled simple mpihello application and run. The
problem is that each distinct mpihello jobs (run1 and run2) uses same
MPI_COMM_WORLD and rank of the process goes like following,

--- out1 (comes from first mpihello.x) ---
  node 17 : Hello world
  node 28 : Hello world
...
...

--- out2 (comes from second mpihello.x) ---
  node 115 : Hello world
  node 113 : Hello world
  node 74 : Hello world
...
...

If the MPI_COMM_WORLD is created separately for each jobs then the node
number (or id or rank) must be start from 0 until 63 in each log file
but this is not the case. So, in the second one the node numbers start
from 64 to 131. If Fortran application uses MPI_COMM_SIZE and
MPI_COMM_RANK to get the total number of processor (in this case it is
132), then rank and total number of processor will be wrong. I think
mpirun is not smart enough in this case. What do you think? Any
suggestions can help.

PS: I am using OpenMPI version 1.5.3 compiled with Intel 12.0.4 compilers.

Regards,

--ufuk

*--- job submission script (in OpenPBS) ---*

#!/bin/bash
#PBS -l walltime=01:00:00
#PBS -l nodes=11:ppn=12
#PBS -N both
#PBS -q esp

# load modules
. /etc/profile.d/modules.sh
module load openmpi/1.5.3/intel/2011
module load netcdf/4.1.1/intel/11.1

# parameters
WRKDIR1=/home/netapp/clima-users/users/uturunco/CAS/run.lake/BOTH
WRKDIR2=/home/netapp/clima-users/users/uturunco/CAS/run.lake/BOTH

# create node files
head -n 64 $PBS_NODEFILE >& $WRKDIR1/nodes1.txt
tail -n 64 $PBS_NODEFILE >& $WRKDIR2/nodes2.txt

# submit jobs
mpirun -np `cat $WRKDIR1/nodes1.txt | wc -l` -machinefile
$WRKDIR1/nodes1.txt -wd $WRKDIR1 ./run1.sh : -np `cat
$WRKDIR2/nodes2.txt | wc -l` -machinefile $WRKDIR2/nodes2.txt -wd
$WRKDIR2 ./run2.sh

*--- end of job submission script ---

---**script run1.sh ---*

#!/bin/sh
./mpihello.x >> out1.txt

*--- end of **script run1.sh ---

**--- script run2.sh ---*

#!/bin/sh
./mpihello.x >> out2.txt

*--- end of **script run2.sh ---*