On Mon, 2013-11-04 at 17:16 +0000, Rasha Alqus wrote:
> Dear Amber users,
>
>
>
> when applying a periodic boundary condition i get to something similar to this system( x x x ) is their a method in amber when i set the periodic boundary condition i can get a continuous model with( xxx )
>
>
>
> Note :
>
> For continuous model i have already set water layer to be only above and below my system, but how do i make my system(x) to be connected with its image.
Amber does not support simulations in which bonds span across periodic
boundaries.
You'll need to use another program that does support this feature (like
Gromacs).
HTH,
Jason
--
Jason M. Swails
BioMaPS,
Rutgers University
Postdoctoral Researcher
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Received on Mon Nov 04 2013 - 09:30:03 PST
