[gmx-users] Gromacs + LAM/MPI error...

[leafyoung81-group at yahoo.com]

--- André Ricardo Landim <landim at lnls.br> wrote:

> 
> Hi list,
> 
> First I would like to ask to forgive for my bad
> english...
> 
> I have a cluster composed by 10 nodes, I run gromacs
> (3.2.1 double 
> precision) + LAM/MPI 7.1.1, but some problems are
> happening...
> 
> When I run (grompp_mpi -np 9 > mpirun n1-9 mdrun_mpi
> -np 9) no problem 
> occur with files on the tutor´s folder (water) but,
> when I run 
> (grompp_mpi -np 9 > mpirun n1-9 mdrun_mpi -np 9) an
> error is shown on my 
> files.

sorry that I could not get what command you have
typed. Can you give the full command line for them.

> 
> The error messages are these:
> 
> #####
>
-----------------------------------------------------------------------------
> One of the processes started by mpirun has exited
> with a nonzero exit
> code.  This typically indicates that the process
> finished in error.
> If your process did not finish in error, be sure to
> include a "return
> 0" or "exit(0)" in your C code before exiting the
> application.
> 
> PID 1910 failed on node n5 (192.168.10.205) due to
> signal 11.
>
-----------------------------------------------------------------------------
> 
> /var/log/messages
> Aug 24 10:36:26 corvus005 kernel: mdrun_mpi[1908]:
> segfault at 
> 0000007f0090ff58 rip 0000002a95eb4884 rsp
> 0000007fbfffe880 error 4
> #####
> 
> Any tips will be accept.
> 
> Best regards,
> 
> -- 
> André Ricardo Landim
> Grupo de Informática
> LNLS - Laboratório Nacional de Luz Síncrotron
> Operado pela ABTLuS para o Ministério da Ciência e
> Tecnologia / CNPq
> Fone (0xx19) 3512-1082 Fax 3512-1004
> http://www.lnls.br | landim at lnls.br
> 
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