I think if you search for "clickable" you will find it in the atom
expressions part. There isn't any elaboration there.
file:///C:/jmol-dev/workspace/Jmol-documentation/script_documentation/index.htm#atomexpressions
Karl Oberholser wrote:
> Bob,
>
> I was not familiar with clickable, so I looked for it in ver. 11.4 of
> help and was not able to find it.
>
> Karl
>
>
>
> Karl M. Oberholser, Ph.D. Phone:
> Professor of Chemistry Voice: 717-766-0512
> Chemistry & Biochemistry Dept. Fax: 717-691-6046
> Messiah College e-mail: [EMAIL PROTECTED]
> P.O. Box 3049
> One College Avenue
> Grantham, Pa 17027
>
>
>
> >>> Bob Hanson <[EMAIL PROTECTED]> 9/19/2007 7:16 AM >>>
> Joost -- I'm forwarding this answer to the list, because I think others
> might be interested in it. You write:
>
> It would be nice to be able to slap per frame or only one frame instead
> of all frames at once. This allows you to se a internal pocket of a
> protein by hiding the front ...% of the protein but showing the entire
> ligand at the same time.
>
>
>
> That is an intriguing idea. I think you can do it already, actually.
> There are two types of slab and also two additional methods:
>
> The original Chime sort: You define a percent from front to back; the
> renderer throws out pixels that are not in range. As the model is
> rotated, different parts move into and out of range. This would probably
> be just too strange if done on a per-model basis. It would not be
> impossible to implement, though.
>
> A new "internal" sort introduced in Jmol 11.1.5. In this mode you define
> the slabbing plane, and the parts of the model on one side of this plane
> are removed. I think this is more like what you are thinking o f -- where
> one part of the model is "cut away", and as the model is rotated, the
> slabbing plane rotates with the model.
>
> slab plane x=3; slab on
> slab plane {1 0 1 0}; slab on
> slab hkl {1/2 1/2 1/2}; slab on
>
> A new manual slabbing capability introduced in Jmol 10.9.71. You can set
> the Chime sort of slab and then select atoms that are "clickable" or
> not. Only atoms currently in range are clickable. So this allows you to
> programmatically do things with atoms based on their current orientation
> of the model.
>
> slab 60; slab on;refresh;display clickable;slab off;
> # now the slab appears to be fixed as the model rotates
>
> A new select "within" criteria introduced in Jmol 11.1.12 allows you to
> select atoms directly depending upon their relationship to a specified
> molecular coordinate plane.
>
> display 1.1 and within (-999, plane {1 0 1 0}) or 2.1
>
> So I would encourage yo u to check these methods out and see if any do
> what you are envisioning. I think all are described in the documentation.
>
> --Bob
>
>
> --
> Robert M. Hanson
> Professor of Chemistry
> St. Olaf College
> Northfield, MN
> http://www.stolaf.edu/people/hansonr
>
>
> 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
>
>
>
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--
Robert M. Hanson
Professor of Chemistry
St. Olaf College
Northfield, MN
http://www.stolaf.edu/people/hansonr
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
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