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Subject: Re: [OMPI users] OpenMPI & SGE: bash errors at mpirun
From: Ralph Castain (rhc_at_[hidden])
Date: 2010-04-27 09:52:32


Looks to me like you have an error in the openmpi module file...

On Apr 27, 2010, at 6:38 AM, Frederik Himpe wrote:

> I'm using SGE 6.1 and OpenMPI 1.4.1 built with gridengine support.
>
> I've got this parallel environment defined in SGE:
>
> pe_name openmpi
> slots 100
> user_lists NONE
> xuser_lists NONE
> start_proc_args /bin/true
> stop_proc_args /bin/true
> allocation_rule $fill_up
> control_slaves TRUE
> job_is_first_task FALSE
> urgency_slots min
>
> OpenMPI is installed in its own prefix
> (/shared/apps/openmpi/gcc-4.4/1.4.1), and can be loaded by the
> environment module (http://modules.sourceforge.net/) openmpi.
>
> Now I can successfully run this pe job:
>
> #!/bin/bash
> #$ -N test
> #$ -q all.q
> #$ -pe openmpi 20
> #$ -cwd
>
> . /etc/profile.d/modules.sh
> module add sge gmp mpfr gcc openmpi/gcc-4.4
>
> mpirun -np $NSLOTS hostname
>
> This script results in empty test.p[oe]* files and a test.o* file with
> different node hostnames, but test.e* contains these errors:
>
> bash: module: line 1: syntax error: unexpected end of file
> bash: error importing function definition for `module'
> bash: module: line 1: syntax error: unexpected end of file
> bash: error importing function definition for `module'
>
> It seems somehow the module environment tools are called in a wrong way,
> but I cannot figure out how this happens. These errors are triggered by
> the mpirun command (commenting out mpirun and just leaving the rest of
> the script intact, does not result in these errors.). I cannot reproduce
> these errors with any other kind of job, nor do they happen when I login
> to any node with ssh or when running the bash command.
>
> So, what exactly does mpirun call which might trigger this error?
>
> --
> Frederik Himpe <fhimpe_at_[hidden]>
>
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