VMD-L Mailing List

From: Guo Zhi (gzgzgz_at_gmail.com)
Date: Sat Dec 16 2006 - 02:59:41 CST

Thanks again, you answer eleminated my doubt. I should avoid changing
the data set and apply the start command each time.

2006/12/16, John Stone <johns_at_ks.uiuc.edu>:
>
> Hi,
> You'll need to make sure that the top molecule is the same as it
> was when you enabled the sscache script. Also, since start/stop create
> and delete Tcl trace registrations, you only want to call start once, and
> call stop once. If you ran the start routine multiple times, that could
> explain why calling stop didn't delete all of the traces, if you only
> ran stop once. If you still have trouble after checking these items,
> let me know, and I'll look into it further.
>
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Sat, Dec 16, 2006 at 01:31:00AM -0500, Guo Zhi wrote:
> > Thank you John, it works.
> > But when I try to turn off the sscache function, for eg. I type:
> >
> > ====================
> > reset_sscache
> > stop_sscache top
> >
> > ====================
> >
> > the sscache function seem to still keep on.
> >
> >
> > 2006/12/16, John Stone <johns_at_ks.uiuc.edu>:
> > >Hi,
> > > Try out the sscache script, it'll do what you have in mind:
> > >http://www.ks.uiuc.edu/Research/vmd/script_library/scripts/sscache/
> > >
> > > John Stone
> > > vmd_at_ks.uiuc.edu
> > >
> > >
> > >On Fri, Dec 15, 2006 at 11:47:23PM -0500, Guo Zhi wrote:
> > >> Dear all vmd users,
> > >>
> > >> My friends and I all find a similar problem that vmd seems to
> > >> render the same secondary structure of a peptide according to the last
> > >> frame judgement during loading the trajectory. Sometimes, this can
> > >> cause illusions if you simply make evaluations based on the movie. My
> > >> question is, is it possible to call STRIDE for each frame and force
> > >> VMD to update the secondary structure rendering immediately.
> > >>
> > >> My current VMD version is 1.8.5
> > >> Running under Debain Linux 2.6.17-2-686
> > >>
> > >> Thanks.
> > >
> > >--
> > >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
> > >
> >
> >
> > --
> > Guo Zhi
>
> --
> 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
> 

-- 
Guo Zhi