[gmx-users] Segmentation fault (11)

[Justin A. Lemkul]

Ricardo O. S. Soares wrote:
> Hi everyone,
> 
> could anyone help me with this? I already searched the mailing archives, 
> with no luck.
> 
> I just installed gromacs 4.0.7 in a new computer here, same as always 
> (with mpi support), but now I get this error whem I run MDRUN with or 
> without mpirun (openmpi):
> 
> 
> starting mdrun 'Protein in water'
> 250000 steps,    500.0 ps.
> step 0
> [host02:21827] *** Process received signal ***
> [host02:21827] Signal: Segmentation fault (11)
> [host02:21827] Signal code: Address not mapped (1)
> [host02:21827] Failing at address: (nil)
> [host02:21827] [ 0] [0xddf410]
> [host02:21827] *** End of error message ***
> Segmentation fault
> 
>  
> Any ideas?
> 

Does the same system run on other machines?  An instant seg fault usually just 
means that your system is physically unrealistic (insufficient minimization, 
inappropriate .mdp parameters for a given force field, etc):

http://www.gromacs.org/Documentation/Terminology/Blowing_Up

-Justin

> Thank you.
> 
> ////
> 
> 
> ---
> 
>  
> 
> Ricardo O. S. Soares , MsC.
> Group of Biological Physics - Department of Physics & Chemistry
> Faculty of Pharmaceutical Sciences at Ribeirão Preto - University of São 
> Paulo.
> Av.do Café, S/N - ZIP:14040-903 - Ribeirão Preto, São Paulo,  Brazil.
> Phone: +55 16 36024840.
> 
> 
> ross_usp at yahoo.com.br,rsoares at fcfrp.usp.br
> 
>  
> 
> 
> 
> 
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-- 
========================================

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

========================================