[gmx-users] grommp warning

[Justin Lemkul]

On 8/13/12 12:36 PM, Shima Arasteh wrote:
> Dear gmx users,
>
> I'm simulating a system of protein and water. In NPT equilibration step, I get the error of too many warnings.
> Anybody knows about this warning?
>

Yes, and there are several posts in the list archive explaining its origin, 
interpretation, and solution.

> The warning is :
>
> WARNING 1 [file NPT.mdp]:
>    You are using pressure coupling with absolute position restraints, this
>    will give artifacts. Use the refcoord_scaling option.
>

You need to set a sensible value for the quoted option.  Consult the manual and 
list archive.

-Justin

-- 
========================================

Justin A. Lemkul, Ph.D.
Research Scientist
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin

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