[gmx-users] fatal errors regarding grid cells

[Justin A. Lemkul]

NAMD GROMACS wrote:
> Hi,
> 
> I am getting this error number of times when I am trying to run Md with 
> a 9 residue peptide in water box using spc216.gro
> 
> It says
> 
> "Number of grid cells is zero. Probably the system and box collapsed."
> 
> earlier after grompp it gives me warning that the protein atom number is 
> less than 10% of total atom number. I dont know if that is causing any 
> problem. even if I change "ns_type" in .mdp file to "simple" from 
> "grid", the problem persists.
> 

Have you searched the mailing list archives?  If you search "number of grid 
cells is zero," you return 70 posts!  Probably one of them will have a clue.

The reason I say this is that you've provided no pertinent details of your 
system - what it contains, how (and if) you prepared, minimized, and 
equilibrated your system.

-Justin

> Please help.
> 
> Thanks and regards,
> 
> Subhashis
> 
> 
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-- 
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Justin A. Lemkul
Graduate Research Assistant
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin

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