[gmx-users] Problem in running Equilibration step

[Mark Abraham]

On 24/03/2012 8:23 PM, Spring buds wrote:
> Hi,
>
> I am trying to run the equilibration step.  I got the below error. 
> could you explain why it happens?

Not without a lot more information - see http://www.gromacs.org/Support. 
Probably you are http://www.gromacs.org/Documentation/Terminology/Blowing_Up

Mark

>
> Thank you
>
>
> [ymu039-107:17471] *** Process received signal ***
> [ymu039-107:17471] Signal: Segmentation fault (11)
> [ymu039-107:17471] Signal code: Address not mapped (1)
> [ymu039-107:17471] Failing at address: 0x8e5db60
> [ymu039-107:17471] [ 0] [0xffffe40c]
> [ymu039-107:17471] [ 1] 
> /usr/local/bin/gromacs454/lib/libgmx_mpi.so.6(do_nonbonded+0x79d) 
> [0xb71dc8fd]
> [ymu039-107:17471] *** End of error message ***
> --------------------------------------------------------------------------
> mpirun noticed that process rank 1 with PID 17471 on node ymu039-107 
> exited on signal 11 (Segmentation fault).
> --------------------------------------------------------------------------
> [ymu039-107:17472] *** Process received signal ***
> [ymu039-107:17472] Signal: Segmentation fault (11)
> [ymu039-107:17472] Signal code: Address not mapped (1)
> [ymu039-107:17472] Failing at address: 0x8e5e0d0
> [ymu039-107:17472] [ 0] [0xffffe40c]
> [ymu039-107:17472] [ 1] 
> /usr/local/bin/gromacs454/lib/libgmx_mpi.so.6(do_nonbonded+0x79d) 
> [0xb72518fd]
> [ymu039-107:17472] *** End of error message ***
>
>

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