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Subject: Re: [OMPI users] Error when attempting to run LAMMPS on Centos 6.2 with OpenMPI
From: Ralph Castain (rhc_at_[hidden])
Date: 2013-01-27 11:24:23


On Jan 26, 2013, at 11:18 PM, #YEO JINGJIE# <JYEO1_at_[hidden]> wrote:

> So I should run the job as:
>
> /usr/lib64/openmpi/bin/mpirun -mca mca_component_show_load_errors 1 -n 16 /opt/lammps-21Jan13/lmp_linux < zigzag.in
>
> Is that correct?

Yes, thanks - though for our purposes, why don't you simplify it to:

/usr/lib64/openmpi/bin/mpirun -mca mca_component_show_load_errors 1 -n 1 hostname

>
> Regards,
> Jingjie Yeo
> Ph.D. Student
> School of Mechanical and Aerospace Engineering
> Nanyang Technological University, Singapore
>
> ________________________________________
> From: users-bounces_at_[hidden] [users-bounces_at_[hidden]] on behalf of Ralph Castain [rhc_at_[hidden]]
> Sent: Sunday, 27 January, 2013 11:58:51 AM
> To: Open MPI Users
> Subject: Re: [OMPI users] Error when attempting to run LAMMPS on Centos 6.2 with OpenMPI
>
> One thing you might try: add "-mca mca_component_show_load_errors 1" to your mpirun cmd line. This will tell us if the libraries have some missing dependencies.
>
> It's the main reason I dislike installing from a package - the package assumes that your system is configured identically to that of the one used to generate the package. This is rarely the case - much easier to just download an OMPI tarball, configure and compile it yourself.
>
>
> On Jan 26, 2013, at 7:32 PM, #YEO JINGJIE# <JYEO1_at_[hidden]> wrote:
>
>> Hi Jeff,
>>
>> Sorry the original error info was lost along the way, I'm terribly new to linux and I am trying to compile OMPI and to run a program, LAMMPS using the command:
>>
>> /usr/lib64/openmpi/bin/mpirun -n 16 /opt/lammps-21Jan13/lmp_linux < zigzag.in
>>
>> And I received the errors:
>>
>> [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file ess_hnp_module.c at line 194
>> --------------------------------------------------------------------------
>> It looks like orte_init failed for some reason; your parallel process is
>> likely to abort. There are many reasons that a parallel process can
>> fail during orte_init; some of which are due to configuration or
>> environment problems. This failure appears to be an internal failure;
>> here's some additional information (which may only be relevant to an
>> Open MPI developer):
>> orte_plm_base_select failed
>> --> Returned value Not found (-13) instead of ORTE_SUCCESS
>> --------------------------------------------------------------------------
>> [NTU-2:24127] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file runtime/orte_init.c at line 128
>> --------------------------------------------------------------------------
>> It looks like orte_init failed for some reason; your parallel process is
>> likely to abort. There are many reasons that a parallel process can
>> fail during orte_init; some of which are due to configuration or
>> environment problems. This failure appears to be an internal failure;
>> here's some additional information (which may only be relevant to an
>> Open MPI developer):
>> orte_ess_set_name failed
>> --> Returned value Not found (-13) instead of ORTE_SUCCESS
>> --------------------------------------------------------------------------
>> [NTU-2:24127] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file orterun.c at line 616
>>
>>
>> I have attached the output for "ompi_info --all" in this email. Any advise and guidance is greatly appreciated, thank you!
>>
>>
>> Regards,
>> Jingjie Yeo
>> Ph.D. Student
>> School of Mechanical and Aerospace Engineering
>> Nanyang Technological University, Singapore
>>
>> ________________________________________
>> From: users-bounces_at_[hidden] [users-bounces_at_[hidden]] on behalf of Jeff Squyres (jsquyres) [jsquyres_at_[hidden]]
>> Sent: Saturday, 26 January, 2013 9:51:43 PM
>> To: Open MPI Users
>> Subject: Re: [OMPI users] Error when attempting to run LAMMPS on Centos 6.2 with OpenMPI
>>
>> Can you provide more information? You really haven't said *what* the problem is that is occurring (even in your followup emails to Ralph). Without such information, it is very hard for us to guess what is wrong.
>>
>> Please send all the information listed here:
>>
>> http://www.open-mpi.org/community/help/
>>
>>
>>
>> On Jan 25, 2013, at 8:51 PM, #YEO JINGJIE# <JYEO1_at_[hidden]>
>> wrote:
>>
>>> I tried to follow the installation instructions over here:
>>>
>>> http://amusecode.org/doc/install/install-prerequisites-redhat.html
>>>
>>> And I am using bash and yum.
>>>
>>> Regards,
>>> Jingjie Yeo
>>> Ph.D. Student
>>> School of Mechanical and Aerospace Engineering
>>> Nanyang Technological University, Singapore
>>> _______________________________________________
>>> users mailing list
>>> users_at_[hidden]
>>> http://www.open-mpi.org/mailman/listinfo.cgi/users
>>
>>
>> --
>> Jeff Squyres
>> jsquyres_at_[hidden]
>> For corporate legal information go to: http://www.cisco.com/web/about/doing_business/legal/cri/
>>
>>
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