VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Tue Jul 09 2013 - 13:03:46 CDT

Hi,
  It's unclear what your problem is from the note below, but if what you're
saying is that you're missing bonds, then that is an issue you would address
by setting them when you originally build the structure. How did you build
your structure? Without far more detailed information about what you're
doing and what you've alreay done, nobody can help you out.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Tue, Jul 02, 2013 at 05:38:55PM -0600, Benjamin Cowen wrote:
> Is there a way to model silica as a macromolecule such that all of the
> atoms are linked together? Currently, the code has many different
> molecules floating around.
>
> Ben 

-- 
NIH Center for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
http://www.ks.uiuc.edu/~johns/           Phone: 217-244-3349
http://www.ks.uiuc.edu/Research/vmd/