VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Mon Aug 15 2005 - 14:07:42 CDT

Bob,
  At the moment VMD doesn't calculate or display bonds between atoms in
periodic images. This is on the TODO list but requires more more finesse
than the code we have implemented thus far. Perhaps in a subsequent release
we'll have something like this. One could do this with scripting, but at
present there's no built-in feature for this purpose.

  John Stone
  vmd_at_ks.uiuc.edu

On Mon, Aug 15, 2005 at 02:23:44PM -0400, Bob Johnson wrote:
> Hello everyone,
> I am trying to visualize an infinite carbon nanotube in VMD. Of course, its
> infinite because I've use periodic boundary conditions in my simulation. The
> tube section is about 8 nm long. Is there anyway to make VMD draw bonds between
> my 8 nm long section of the nanotube and it's images?
> Thanks,
> Bob Johnson 

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NIH Resource for Macromolecular Modeling and Bioinformatics
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