[gmx-users] clashes

Justin A. Lemkul jalemkul at vt.edu
Wed Mar 14 15:31:54 CET 2012

Dariush Mohammadyani wrote:
> Yes, you are right. I made a mistake to write an error:
> [n0017:07436] *** Process received signal ***
> [n0017:07436] Signal: Segmentation fault (11)
> [n0017:07436] Signal code: Address not mapped (1)
> [n0017:07436] Failing at address: 0x1d620d20
> What do you mean for "Better energy minimization"?

Your system is likely blowing up.


Something has become physically unstable, which is usually due to incorrect .mdp 
parameters for the run that lead to the breakdown of the physical model or (more 
commonly) the simulation was not initialized from a suitably low-energy state, 
implying either insufficient minimization (i.e. Fmax was too high) or inadequate 



Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080


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