VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Jul 28 2004 - 08:42:17 CDT

Hi,
  You've almost got it, but you need to add a "molecule name" line
after the 2:
  http://www.ks.uiuc.edu/Research/vmd/plugins/molfile/xyzplugin.html

So your file should look more like:

2
mymolecule
ar1 x y z ....
ar2 x y z .....
2
mymolecule
ar1 x y z ....
ar2 x y z .....

Hope that helps,
  John Stone
  vmd_at_ks.uiuc.edu

On Wed, Jul 28, 2004 at 08:26:10AM -0500, John M. Kolinski wrote:
> I'm relatively new to the VMD software, and wrote a primitive MD program that
> outputs an XYZ formatted file. I recently downloaded the plug-ins, and loaded
> the file, but nothing appeared on the screen.
>
> There are 2 Argon atoms bouncing together, and the coordinates lie along the
> x-axis in Angstroms. They are listed in the following manner:
>
> 2
> Ar1 (coords, angstroms)
> Ar2 ("")
> 2
> Ar1 ("")
> ...
>
> How can I get VMD to read this file as frames and output a video for it? Thanks
> for all your help!
>
> John 

-- 
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              
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