VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Tue Apr 22 2003 - 13:57:56 CDT

Ioana,
  Can you provide me with an example file and matching a/b/c/alpha/beta/gamma
values that cause the gaps so I can test it out here? Since we're still
working on this code, its possible we might be able to add the boxes you
request, we'll see if we have enough time left after we get some of the
critical development tasks taken care of. Anyway, let me know about
the test files and I'll see what's going on.

Thanks,
  John Stone
  vmd_at_ks.uiuc.edu

On Mon, Apr 21, 2003 at 11:38:49AM -0700, Ioana Cozmuta wrote:
> Hi,
>
> I am having troubles showing a periodic representation of a water box. I
> load the structure generated in amber (pdb file made with ambpdb from
> prmcrd and prmtop files). Then I set the values for a, b, c, and the UC
> angles corresponding to the values in the prmcrd file.
> When I want to show the +X or -X image, between the self representation
> and the images there is a gap.
> Also when I load a .dcd file I have to reset the UC parameters for every
> frame, it seems that vmd does not now how to store them. Is there a simple
> way around this?
>
> Would it be possible to add in the Representation menu some boxes for the
> UC parameters?
>
> Thanks,
> Ioana 

-- 
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