Hi,
Looks like you tried to load 'Amber Coordinates' when you actually
need 'Amber Coordinates with Periodic Box'. To avoid this issue in the
future use NetCDF trajectories (ioutfm=1).
-Dan
On Fri, Feb 6, 2015 at 1:04 PM, Anupam Goel <goelan.uab.edu> wrote:
> Hi all,
>
> I am running explicit solvent simulation for the first time and my structure falls apart. Has anyone noticed such behavior before? Please suggest troubleshooting.
>
> I am attaching a picture of what the trajectory looks like on vmd. Also, attaching mdcrd, prmtop and other associated files.
>
> Thanks,
> AG
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--
-------------------------
Daniel R. Roe, PhD
Department of Medicinal Chemistry
University of Utah
30 South 2000 East, Room 307
Salt Lake City, UT 84112-5820
http://home.chpc.utah.edu/~cheatham/
(801) 587-9652
(801) 585-6208 (Fax)
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Received on Fri Feb 06 2015 - 12:30:04 PST
