[gmx-users] compilation problems orte error

[Chandan Choudhury]

As Justin said give the command line options for mdrun and also check that
your mpi environment is running.  Better to run a parallel job and check its
output.

Chadnan

--
Chandan kumar Choudhury
NCL, Pune
INDIA


On Mon, Feb 8, 2010 at 8:02 PM, Justin A. Lemkul <jalemkul at vt.edu> wrote:

>
>
> Jennifer Williams wrote:
>
>>
>> Dear All,
>>
>> I am having problems compiling gromacs 4.0.7 in parallel. I am following
>> the
>> Quick and Dirty Installation instructions on the gromacs webpage.
>> I downloaded the the versions of fftw, OpenMPI and gromacs-4.0.7 following
>> these instructions.
>>
>> Everything seems to compile OK and I get all the serial executables
>> including mdrun written to my bin directory and they seem to run fine.
>> However when I try to run mdrun_mpi on 6 nodes I get the following:
>>
>> [vlxbig16:08666] [NO-NAME] ORTE_ERROR_LOG: Not found in file
>> runtime/orte_init_stage1.c at line 182
>> [vlxbig16:08667] [NO-NAME] ORTE_ERROR_LOG: Not found in file
>> runtime/orte_init_stage1.c at line 182
>> [vlxbig16:08700] [NO-NAME] ORTE_ERROR_LOG: Not found in file
>> runtime/orte_init_stage1.c at line 182
>> [vlxbig16:08670] [NO-NAME] ORTE_ERROR_LOG: Not found in file
>> runtime/orte_init_stage1.c at line 182
>> [vlxbig16:08681] [NO-NAME] ORTE_ERROR_LOG: Not found in file
>> runtime/orte_init_stage1.c at line 182
>> [vlxbig16:08659] [NO-NAME] ORTE_ERROR_LOG: Not found in file
>> runtime/orte_init_stage1.c at line 182
>> --------------------------------------------------------------------------
>> 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_rml_base_select failed
>>  --> Returned value -13 instead of ORTE_SUCCESS
>>
>>
>> Does anyone have any idea what is causing this? Computer support at my
>> University is not sure.
>>
>>
> How are you launching mdrun_mpi (command line)?
>
> -Justin
>
>
>> Thanks
>>
>>
>>
>>
> --
> ========================================
>
> Justin A. Lemkul
> Ph.D. Candidate
> ICTAS Doctoral Scholar
> MILES-IGERT Trainee
> Department of Biochemistry
> Virginia Tech
> Blacksburg, VA
> jalemkul[at]vt.edu | (540) 231-9080
> http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
>
> ========================================
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