VMD-L Mailing List

From: Yusu Wang (wys_at_cs.duke.edu)
Date: Tue Jan 27 2004 - 00:21:30 CST

  It worked. Thanks a lot.

  However, the output stl is transformed and scaled. Is it possible to
  obtain it in the original coord-system? I know that if I use "save
  state" option, then vmd can output a file containing viewing infor.
  But I am not sure how exactly to get the transformation matrix from
  that file.

  Thanks,
  --Yusu 

--
Yusu Wang, CS Dept. Duke University. Durham, NC, 27008-0129
http://www.cs.duke.edu/~wys
On Mon, 26 Jan 2004, John Stone wrote:
> Dear Yusu,
>   VMD stores the output of both Surf and MSMS internally and doesn't
> keep any of the output as a file.  You can emit the surface triangulation
> using the "STL" rendering method which writes a triangulated surface.
> Alternately, you could run Surf or MSMS by hand and read their output
> files directly.  Within VMD though, using one of the "Render" options
> is the easiest way to get a surface out.  Before rendering, be sure
> that the only geometry displayed in VMD is the surface you're interested in.
>
> Thanks,
>   John Stone
>   vmd_at_ks.uiuc.edu
>
> On Mon, Jan 26, 2004 at 03:23:42PM -0500, Yusu Wang wrote:
> >
> >   I am a Mac user (mac OS X). I'd like to compute the triangulation
> >   of a molecular surface. I know that surf can do that. However, I
> >   don't know where vmd stores the tempary output file of that
> >   triangulation. Does any one have any idea? Thanks a million!
> >
> >   --Yusu
> > --
> > Yusu Wang, CS Dept. Duke University. Durham, NC, 27008-0129
> > http://www.cs.duke.edu/~wys
>
> --
> 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
>