VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Thu Jul 06 2006 - 12:56:46 CDT

Hi,
  VMD will only load trajectories with a fixed number of atoms per
trajectory timestep. If your XYZ file has a varying number of atoms per
frame, VMD will not read it currently, and there's not really a workaround
except to write them out as separate files and load them into VMD individually
as separate molecules, animating them using scripts.

  John Stone
  vmd_at_ks.uiuc.edu

On Thu, Jul 06, 2006 at 11:00:52AM -0500, Jayendra Balasubramanian wrote:
> I am trying to run an animation of an MD simulation in the xyz format. The
> number of atoms in each frame is different, however when I load the xyz file
> only the first frame shows up and vmd does not read the consequent frames.
> Is this because the number of atoms is different? How can this be fixed?
>
>
>
> Jay
>
> Chemical Engineering
>
> UA
> 

-- 
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