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Re: [Jmol-users] camera dependent slab setting
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From: Alexander R. <ale...@we...> - 2010-09-04 14:25:01
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Hi, Am 03.09.2010 um 18:49 schrieb Robert Hanson: > So I think we could set some slab option to be dependent upon zoom. For example: > > slab 5.0 > > a decimal here would indicate that at whatever zoom level you are at, the slab would be set to be wherever the visual range is 5.0 Angstroms. > > Something like that? > that sounds great! > > On Fri, Sep 3, 2010 at 11:10 AM, Alexander Rose <ale...@we...> wrote: > Hi, > > ----- Ursprüngliche Mail ----- > > Von: "Robert Hanson" <ha...@st...> > > An: jmo...@li... > > Gesendet: Freitag, 3. September 2010 16:46:50 > > Betreff: Re: [Jmol-users] camera dependent slab setting > > It seems to me that is what the standard SLAB command is for. Right? > > > > In a way, but it's static, the slab is not dependent on the zoom. So when I zoom in more deeply, I would have to adjust the slab setting to show less, and when I zoom out to show more again. This fine when creating images or focusing on one area, but when exploring a larger part of a protein it becomes annoying and I miss such a feature as it is available in other viewers. > > > Best > Alexander > > > If you use > > > > slab on > > slab 60 # or whatever > > set slabByAtom > > > > it might be very close to what you are talking about. > > > > Bob > > > > > > > > > > On Fri, Sep 3, 2010 at 9:36 AM, Alexander Rose < > > ale...@we... > wrote: > > > > > > Hi Bob, > > > > I set up a web page to clarify what I mean: > > http://weirdbyte.de/jmol-test/html/nav.html > > > > There are three applet, showing a protein in the same orientation. The > > first applet shows the protein in the normal - non navigation - mode > > and has some atom obscuring most of the rest. The second applet is in > > navigation mode and has the default visualRange = 5 setting. According > > to the documentation this results in "any object in a plane that is > > less than 5.0 Angstroms across will be clipped automatically". And it > > works, giving a beautiful clear view, this is what I would like for > > the non navigation mode, too!. Applet 3 then is also in navigation > > mode but with visualRange set to 1 so that the notorious atom is not > > clipped automatically and obscures the view again, the reflection is > > nice though. I hope this makes my intention clear. > > > > > > Best > > Alexander > > > > > > ps: congrats for your jmol related publication! > > > > > > ----- Ursprüngliche Mail ----- > > > Von: "Robert Hanson" < ha...@st... > > > > An: jmo...@li... > > > Gesendet: Mittwoch, 25. August 2010 15:58:20 > > > > > > > > > Betreff: Re: [Jmol-users] camera dependent slab setting > > > I thought that was what you meant -- the equivalent of visualRange > > > but > > > for standard mode. > > > > > > > > > On Wed, Aug 25, 2010 at 7:57 AM, Alexander Rose < > > > ale...@we... > wrote: > > > > > > > > > Hi, > > > > > > I tried rotationRadius, but it has not the effect visualRange has. > > > In > > > fact I do not really understand the effect, apart from somehow > > > setting > > > the zoom and the possible zoom range. That is with 12.0.8. > > > > > > > > > Alex > > > > > > > > > ----- Ursprüngliche Mail ----- > > > > Von: "Robert Hanson" < ha...@st... > > > > > An: jmo...@li... > > > > Gesendet: Dienstag, 24. August 2010 22:24:17 > > > > > > > Betreff: Re: [Jmol-users] camera dependent slab setting > > > > > > > > > > > > > Indeed! > > > > > > > > set rotationRadius (Angstroms) > > > > > > > > > > > > > > > > Sets the nominal rotation radius for the model effectively setting > > > > the > > > > size of the model at zoom 100 . Normally set to the radius that > > > > will > > > > contain within the screen the entire model when rotated relative > > > > to > > > > the default rotation center. > > > > > > > > > > > > > > > > :) > > > > > > > > Bob > > > > > > > > > > > > > > > > On Mon, Aug 23, 2010 at 5:16 AM, Alexander Rose < > > > > ale...@we... > wrote: > > > > > > > > > > > > > > > > Because its such a different experience I came to think that > > > > something > > > > like visualRange would be useful for the non nav mode?! > > > > > > > > > > > > Best > > > > Alexander > > > > > > > > > > > > > > > > > > > > > > > > > > > > -- > > > > Robert M. Hanson > > > > Professor of Chemistry > > > > St. Olaf College > > > > 1520 St. Olaf Ave. > > > > Northfield, MN 55057 > > > > http://www.stolaf.edu/people/hansonr > > > > phone: 507-786-3107 > > > > > > > > > > > > If nature does not answer first what we want, > > > > it is better to take what answer we get. > > > > > > > > -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 > > > > > > > > ------------------------------------------------------------------------------ > > > > Sell apps to millions through the Intel(R) Atom(Tm) Developer > > > > Program > > > > Be part of this innovative community and reach millions of netbook > > > > users > > > > worldwide. Take advantage of special opportunities to increase > > > > revenue > > > > and > > > > speed time-to-market. Join now, and jumpstart your future. > > > > http://p.sf.net/sfu/intel-atom-d2d > > > > > > > _______________________________________________ > > > > Jmol-users mailing list > > > > Jmo...@li... > > > > https://lists.sourceforge.net/lists/listinfo/jmol-users > > > > > > ------------------------------------------------------------------------------ > > > Sell apps to millions through the Intel(R) Atom(Tm) Developer > > > Program > > > Be part of this innovative community and reach millions of netbook > > > users > > > worldwide. Take advantage of special opportunities to increase > > > revenue > > > and > > > speed time-to-market. Join now, and jumpstart your future. > > > http://p.sf.net/sfu/intel-atom-d2d > > > > > > > > > > > > _______________________________________________ > > > Jmol-users mailing list > > > Jmo...@li... > > > https://lists.sourceforge.net/lists/listinfo/jmol-users > > > > > > > > > > > > -- > > > Robert M. Hanson > > > Professor of Chemistry > > > St. Olaf College > > > 1520 St. Olaf Ave. > > > Northfield, MN 55057 > > > http://www.stolaf.edu/people/hansonr > > > phone: 507-786-3107 > > > > > > > > > If nature does not answer first what we want, > > > it is better to take what answer we get. > > > > > > -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 > > > > > > ------------------------------------------------------------------------------ > > > Sell apps to millions through the Intel(R) Atom(Tm) Developer > > > Program > > > Be part of this innovative community and reach millions of netbook > > > users > > > worldwide. Take advantage of special opportunities to increase > > > revenue > > > and > > > speed time-to-market. Join now, and jumpstart your future. > > > http://p.sf.net/sfu/intel-atom-d2d > > > _______________________________________________ > > > Jmol-users mailing list > > > Jmo...@li... > > > https://lists.sourceforge.net/lists/listinfo/jmol-users > > > > ------------------------------------------------------------------------------ > > > > This SF.net Dev2Dev email is sponsored by: > > > > Show off your parallel programming skills. > > Enter the Intel(R) Threading Challenge 2010. > > http://p.sf.net/sfu/intel-thread-sfd > > > > > > > > _______________________________________________ > > Jmol-users mailing list > > Jmo...@li... > > https://lists.sourceforge.net/lists/listinfo/jmol-users > > > > > > > > -- > > Robert M. Hanson > > Professor of Chemistry > > St. Olaf College > > 1520 St. Olaf Ave. > > Northfield, MN 55057 > > http://www.stolaf.edu/people/hansonr > > phone: 507-786-3107 > > > > > > If nature does not answer first what we want, > > it is better to take what answer we get. > > > > -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 > > > > ------------------------------------------------------------------------------ > > This SF.net Dev2Dev email is sponsored by: > > > > Show off your parallel programming skills. > > Enter the Intel(R) Threading Challenge 2010. > > http://p.sf.net/sfu/intel-thread-sfd > > _______________________________________________ > > Jmol-users mailing list > > Jmo...@li... > > https://lists.sourceforge.net/lists/listinfo/jmol-users > > ------------------------------------------------------------------------------ > This SF.net Dev2Dev email is sponsored by: > > Show off your parallel programming skills. > Enter the Intel(R) Threading Challenge 2010. > http://p.sf.net/sfu/intel-thread-sfd > _______________________________________________ > Jmol-users mailing list > Jmo...@li... > https://lists.sourceforge.net/lists/listinfo/jmol-users > > > > -- > Robert M. Hanson > Professor of Chemistry > St. Olaf College > 1520 St. Olaf Ave. > Northfield, MN 55057 > http://www.stolaf.edu/people/hansonr > phone: 507-786-3107 > > > If nature does not answer first what we want, > it is better to take what answer we get. > > -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 > ------------------------------------------------------------------------------ > This SF.net Dev2Dev email is sponsored by: > > Show off your parallel programming skills. > Enter the Intel(R) Threading Challenge 2010. > http://p.sf.net/sfu/intel-thread-sfd_______________________________________________ > Jmol-users mailing list > Jmo...@li... > https://lists.sourceforge.net/lists/listinfo/jmol-users |