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 > > GPG Key ID: 1024D/69B1D346 > - ---------------------------------------------------- > -----BEGIN PGP SIGNATURE----- > Version: GnuPG v1.0.7 (Darwin) > > iD8DBQE9j2CjMygj1Wmx00YRAi6RAJ45zAsff2DEsKTeNJR2ul5BkFURbACfZFaG > ho6XobfQPkh/a5/4se9HLkI= > =BqTf > -----END PGP SIGNATURE----- > > > > ------------------------------------------------------- > This sf.net email is sponsored by:ThinkGeek > Welcome to geek heaven. > http://thinkgeek.com/sf > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users >