VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Thu Mar 11 2004 - 14:35:03 CST

Hi Franca,
  Well, without seeing the file I have no guess as to why you don't
see any structure, it could be one of several things. Sometimes
its something as simple as a single atom that's WAY out in left field
causing the default VMD scaling to be poor and thus resulting in the
structure ending up behind the rear clipping plane or something like that.
It could also be some other odd thing with the structure, or maybe even
a bug in the plugin, but impossible for me to guess without a sample file
to take a look at.

I believe the plugin should read gromos96 .g96 trajectories, the code
purports to, though I haven't tested this personally in a while.

  John Stone
  vmd_at_ks.uiuc.edu

On Thu, Mar 11, 2004 at 09:47:43AM +0000, Franca Fraternali wrote:
> I am running vmd on a linux platform.
> I also would like to know if trajectories from gromos96 can be loaded up
> like the gromacs ones...
>
> the file is too big for an attachment, if you really need it I'll put it
> on an external site...
>
> thanks
> ff
> Dr. Franca Fraternali
> Mathematical Biology Division
> National Institute for Medical Research
> The Ridgeway, Mill Hill
> NW7 1AA London
> tel (direct) 02088162250
> tel 0208 959 3666 ext. 2250
> fax 0208 906 4477 /02088162460
> http://mathbio.nimr.mrc.ac.uk 

-- 
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