VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Tue Jan 31 2012 - 15:47:00 CST

Hi,
  This has nothing to do with CUDA, as there's no CUDA code involved
in STRIDE secondary structure calculations, nor in the NewRibbons / NewCartoon
representations as implemented in VMD 1.9. I suspect a graphics driver
issue of some kind. As others have already said, we will need much more
information in order to help you track this down since it works fine for
other people.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Mon, Jan 30, 2012 at 12:27:33PM +0100, thereal sisterdot wrote:
> Dear all,
>
> i am having trouble seeing structures with the styles NewRibbons
> NewCartoon, while Ribbons and Cartoon seem to work.
>
> e.g. for
> http://www.rcsb.org/pdb/files/3QBF.pdb.gz
>
> > mol new 3QBF.pdb
> > vmd_calculate_structure 0
> > [atomselect top "name CA"] get structure
> C E E C T T T T T E E E E E E T T E E E E E E E T T T T C C E E E C C C C
> C C C C C E E E E E E E E T T E E E E E E E E E E E E E E E E T T E E E E
> E E E E E T T T T T T T E E E C H H H H G G G C C E E E T T T B C T T T T
> T E E E E E E T T E E E E E E E T T T T C C C E E C C C C C C C C E E E E
> E E E E E T T E E E E E E E E E E E E E E E E T T T E E E E E E E E E T T
> T T T T E E E C H H H H H H H H C C E E E C
> > mol modstyle 0 0 cartoon
> (works okay)
> > mol modstyle 0 0 newcartoon
> (shows almost nothing- although some specks here and there seem visible)
>
> is it cause i am missing CUDA?
>
> thanks a lot
> Maria 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
http://www.ks.uiuc.edu/~johns/           Phone: 217-244-3349
http://www.ks.uiuc.edu/Research/vmd/       Fax: 217-244-6078