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Subject: Re: [OMPI users] qsub - mpirun problem
From: Zhiliang Hu (zhu_at_[hidden])
Date: 2008-09-29 16:33:52


At 07:37 PM 9/29/2008 +0200, Reuti wrote:

>>"-l nodes=6:ppn=2" is all I have to specify the node requests:
>
>this might help: http://www.open-mpi.org/faq/?category=tm

Essentially the examples given on this web is no difference from what I did.
Only thing new is, I suppose "qsub -I " is for interactive mode. When I did this:

  qsub -I -l nodes=7 mpiblastn.sh

It hangs on "qsub: waiting for job 798.nagrp2.ansci.iastate.edu to start".

>>UNIX_PROMPT> qsub -l nodes=6:ppn=2 /path/to/mpi_program
>>where "mpi_program" is a file with one line:
>> /path/to/mpirun -np 12 /path/to/my_program
>
>Can you please try this jobscript instead:
>
>#!/bin/sh
>set | grep PBS
>/path/to/mpirun /path/to/my_program
>
>All should be handled by Open MPI automatically. With the "set" bash
>command you will get a list with all defined variables for further
>analysis; and where you can check for the variables set by Torque.
>
>-- Reuti

"set | grep PBS" part had nothing in output.

Zhiliang