[gmx-users] Group protein not found in indexfile

[Justin Lemkul]

On 11/6/13 1:52 PM, Steve Seibold wrote:
> Hello
>
> I am having trouble running a dimmer invacuo simulation. I can do energy
> minimization on it, but when I attempt to generate md.tpr file I get this
> weird message about “Group Protein not found in index”. I don’t see why I
> would need an index file. I have no trouble generating a md.tpr file  for md
> (afer energy minimization) IF I solvate the system. It is only in a vacuum
> that I cannot generate a .tpr file using grompp. Has anyone else had this
> symptom with Gromacs?
>

I was trying to help you before:

http://lists.gromacs.org/pipermail/gmx-users/2013-November/085179.html

but the thread went cold, so I assumed you had fixed it.  If you're still having 
problems, we still need to see the information I asked for before.

-Justin

-- 
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Justin A. Lemkul, Ph.D.
Postdoctoral Fellow

Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 601
University of Maryland, Baltimore
20 Penn St.
Baltimore, MD 21201

jalemkul at outerbanks.umaryland.edu | (410) 706-7441

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