VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Thu Feb 07 2008 - 22:37:45 CST

Tony,
  If you don't want any bonds to be calculated by the distance-based
bond search, you can load your molecule files from the command line,
adding the option "autobonds off" to the end of the command, which will
prevent any automatic bond determination from being done. This will leave
it up to you to provide connectivity information either by loading
additional files, manually specifying bonds interactively with the mouse,
or by doing bond assignment via scripts.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Thu, Feb 07, 2008 at 10:58:15PM -0500, Tony Sheh wrote:
> When a molecule is loaded, a bond is "computed" between each atom. Is
> there a way to turn this computation off, but still be able to specify
> connectivity?
>
> Cheers,
> Tony 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
Email: johns_at_ks.uiuc.edu                 Phone: 217-244-3349
  WWW: http://www.ks.uiuc.edu/~johns/      Fax: 217-244-6078