[gmx-users] mpirun noticed that process rank 7 with PID 19160 on node compute-0-28.local exited on signal 11 (Segmentation fault).

[Vidya R]

https://drive.google.com/file/d/0BxGqxeGwTDLbLWJ5SExDblVhRFU
/view?usp=sharing&ts=59be86ad

On Sun, Sep 17, 2017 at 6:35 PM, Justin Lemkul <jalemkul at vt.edu> wrote:

>
>
> On 9/17/17 1:22 AM, Vidya R wrote:
>
>> My log file is provided in the link below
>>
>> Can you please look into it and let me know why the error arises?
>>
>> I am feeding my commands in SGE cluster.   When I run it in my login node,
>> gmx mdrun -v -deffnm eql runs well
>>
>>
>> But, through qsub command, (with 8 processors) It says,
>>
>> mpirun noticed that process rank 7 with PID 19160 on node
>> compute-0-28.local exited on signal 11 (Segmentation fault).
>>
>> Please help me.
>>
>> I am unable to figure out, as to whether the problem is with the version
>> of
>> gromacs or the method of compiling.
>>
>>
>> https://drive.google.com/file/d/0BxGqxeGwTDLbQW9OZDFuM1doUlU
>> /view?usp=sharing
>>
>>
> I am unable to view the file, as it says I do not have permission.  Please
> change the access restrictions on it.
>
> -Justin
>
> --
> ==================================================
>
> Justin A. Lemkul, Ph.D.
> Assistant Professor
> Virginia Tech Department of Biochemistry
>
> 303 Engel Hall
> 340 West Campus Dr.
> Blacksburg, VA 24061
>
> jalemkul at vt.edu | (540) 231-3129
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>
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