[gmx-users] Using thermostats to create temperature gradient in system

[Justin Lemkul]

On 4/26/15 8:14 PM, Agnivo Gosai wrote:
> Hello all,
>
> Thanks to Dr. Lemkul for asking.
>
> This is what I did to reach my present state :
>
> (a) Prepared the topology of the system using GROMOS96 43a2 ff and energy
> minimized the system after solvation using steepest descent algorithm.
>
> (b) Did a position restrained ( protein ) 5 ns
>
>
> Fatal error:
> 2936 atoms are not part of any of the T-Coupling groups
> For more information and tips for troubleshooting, please check the GROMACS
>

This means your tc-grps are set up incorrectly, but again you haven't provided 
your actual settings (copy and paste your .mdp when reporting problems - always).

-Justin

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

Justin A. Lemkul, Ph.D.
Ruth L. Kirschstein NRSA Postdoctoral Fellow

Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 629
University of Maryland, Baltimore
20 Penn St.
Baltimore, MD 21201

jalemkul at outerbanks.umaryland.edu | (410) 706-7441
http://mackerell.umaryland.edu/~jalemkul

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