From: Fatemesadat Emami (fe2_at_zips.uakron.edu)
Date: Tue Jul 17 2012 - 14:38:41 CDT

thanks, it worked...

---------- Forwarded message ----------
From: Axel Kohlmeyer <akohlmey_at_gmail.com>
Date: Tue, Jul 17, 2012 at 3:27 PM
Subject: Re: vmd-l: periodic bonds in vmd
To: Fatemesadat Emami <fe2_at_zips.uakron.edu>
Cc: vmd-l_at_ks.uiuc.edu

On Tue, Jul 17, 2012 at 8:10 PM, Fatemesadat Emami <fe2_at_zips.uakron.edu>
wrote:
> Dear vmd users,
> I have simulated a surface (infinite with periodic bonds) with namd. When
I
> visualize it in vmd the bonds over the boundaries are shown. Is there any
> way to not visualize the periodic bonds to have a cleaner visualization?

how about generating a custom .psf file
that is missing these bonds
only for visualization purposes?

axel

> Thanks
> FSE
>
> --
> Yours Sincerely,
> Fateme Sadat Emami
> Nano Scale Laboratory
> Polymer Engineering Department
> The University of Akron

--
Dr. Axel Kohlmeyer  akohlmey_at_gmail.com  http://goo.gl/1wk0
International Centre for Theoretical Physics, Trieste. Italy.
-- 
*Yours Sincerely,
Fateme Sadat Emami
Nano Scale Laboratory
Polymer Engineering Department
The University of Akron*