VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Mon Feb 20 2006 - 18:41:22 CST

Younes,
  Did you try running these commands manually (rather than in .vmdrc)
after loading your molecule? Depending on how you're running VMD,
these commands can take place in such a way that they won't affect
the molecule(s) you have loaded. Even in the best case, adding them
to .vmdrc will only affect a molecule loaded at startup from the
command line. Also, you may have to escape the ' characters since
they may be treated as a regular expression syntax otherwise.
Check the VMD User's Guide, there are a few examples there of
specifying atom names that contain punctuation characters such as '.

  John Stone
  vmd_at_ks.uiuc.edu

On Sun, Feb 19, 2006 at 10:38:20AM -0800, Younes Ansari wrote:
> dear Sir:
> I am trying to define the Hg atom in the .vmdrc using:
>
> set sel [atomselect top "name HG'']
> $sel set radius 1.9
>
> but no changes appears while I am trying to see the difference between Hg
> and H atom(VDW).
>
> Would you please tell me what exactly to do?
>
>
> THANKS................ 

-- 
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