[Beowulf] python2.4 error when loose MPICH2 TI with Grid Engine

Sangamesh B forum.san at gmail.com
Fri Feb 22 03:23:04 EST 2008


Dear Reuti & members of beowulf,

I need to execute a parallel job thru grid engine.

MPICH2 is installed with Process Manager:mpd.

Added a parallel environment MPICH2 into SGE:

$ qconf -sp MPICH2
pe_name           MPICH2
slots             999
user_lists        NONE
xuser_lists       NONE
start_proc_args   /share/apps/MPICH2/startmpi.sh -catch_rsh $pe_hostfile
stop_proc_args    /share/apps/MPICH2/stopmpi.sh
allocation_rule   $pe_slots
control_slaves    FALSE
job_is_first_task TRUE
urgency_slots     min


Added this PE to the default queue: all.q.

mpdboot is done. mpd's are running on two nodes.

The script for submitting this job thru sge  is:

$ cat subsamplempi.sh
#!/bin/bash

#$ -S /bin/bash

#$ -cwd

#$ -N Samplejob

#$ -q all.q

#$ -pe MPICH2 4

#$ -e ERR_$JOB_NAME.$JOB_ID

#$ -o OUT_$JOB_NAME.$JOB_ID

date

hostname

/opt/MPI_LIBS/MPICH2-GNU/bin/mpirun -np $NSLOTS -machinefile
$TMP_DIR/machines ./samplempi

echo "Executed"

exit 0


The job is getting submitted, but not executing. The error and output file
contain:

cat ERR_Samplejob.192
/usr/bin/env: python2.4: No such file or directory

$ cat OUT_Samplejob.192
-catch_rsh
/opt/gridengine/default/spool/compute-0-0/active_jobs/192.1/pe_hostfile
compute-0-0
compute-0-0
compute-0-0
compute-0-0
Fri Feb 22 12:57:18 IST 2008
compute-0-0.local
Executed

So the problem is coming for python2.4.

$ which python2.4
/opt/rocks/bin/python2.4

I googled this error. Then created a symbolic link:

# ln -sf /opt/rocks/bin/python2.4 /bin/python2.4

After this also same error is coming.

I guess the problem might be different. i.e. gridengine might not getting
the link to running mpd.

And the procedure followed by me to configure PE might be wrong.

So, I expect from you to clear my doubts and help me to resolve this error.

1. Is the PE configuration of MPICH2 + grid engine right?

2. Without Tight integration, is there  a way to run a MPICh2(mpd) based job
using gridengine?

3. In smpd-daemon based and daemonless MPICH2 tight integration, which one
is better?

4. Can we do mvapich2 tight integration with SGE? Any differences with
process managers wrt MVAPICH2?


Thanks & Best Regards,
Sangamesh B


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