Serge,
The zoom command in the released version is flaky and sometimes causes
clipping. I've fixed this in the development version and will be preparing a
new release shortly.
The best thing you can do right now is put a large buffer on the zoom
command...
zoom all,20
etc.
Cheers,
Warren
--
mailto:war...@sunesis.com
Warren L. DeLano, Ph.D.
Informatics Manager
Sunesis Pharmaceuticals, Inc.
341 Oyster Point Blvd.
S. San Francisco, CA 94080
(650)-266-3606 FAX:(650)-266-3501
> -----Original Message-----
> From: Serge Cohen [mailto:co...@embl-grenoble.fr]
> Sent: Monday, September 23, 2002 11:43 AM
> To: pymol-users@lists.sourceforge.net
> Subject: [PyMOL] Zooming in, on an atom
>
>
> -----BEGIN PGP SIGNED MESSAGE-----
> Hash: SHA1
>
> Hi again,
>
> This is a different question, I though it was better if I put it in a
> different eMail:
>
> I'm trying to produce a movie showing a metal binding site in my
> protein. I'd like to start from the general (cartoon) view, and then
> zoom in (or traveling in) to focus on the metal.
>
> So far I used a loop looking like:
>
> # Traveling in the site
> diam = 30.0
> final = 6.0
> step = 0.0 + (N.exp((N.log(final) - N.log(diam)) * 1/40))
> for a in range (1, 40):
> cmd.mdo(a,"zoom ((zn expand %2.9f) & (prot1 or zn)); origin (zn &
> i;2)"%(diam))
> diam = diam*step
>
>
> The problem is that because atoms "fall off" the zooming selection un
> regularly, the traveling is unstable (wiggly)... Indeed I
> have a third
> object (not zn neither prot1) in the figure, I had to remove
> it from the
> zooming because it was only on one side of the site and it was giving
> even worse unstabilities...
>
> Does anyone knows better ways to do this king of traveling in?
>
> Indeed I was first thinking to center each frames on a "moving" point
> which get closer to the zinc, and have a "progressive" move z at the
> same time. Unfortunately the only command I found to put a given
> position in the middle of the screen is to use zoom, and it
> also change
> the z position... Am I missing some commands?
>
> Thanks for any help.
>
> Serge.
>
>
> - ----------------------------------------------------
> Serge Cohen
>
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> - ----------------------------------------------------
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