[chimerax-users] Placing Centroid at center of selection

[German Barcenas]

Ahh ok, so I was overcomplicating it I guess(: I just tried this and it
worked.

Thanks so much!

On Wed, Mar 16, 2022 at 6:53 PM Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi German,
> Sure!  "sel" is an atom specification that means the currently selected
> atoms.  So if you have selected the atoms of the benzene ring, it would be
> something like:
>
> define centroid sel radius 0.25 color orange
>
> ...where "sel" is the atom-spec as shown in the usage information:
> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/define.html#centroid>
>
> There are lots of different ways to give an atom-spec.  Instead of "sel"
> you could give residue number(s) or name(s), atom name(s), "protein" etc.
> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/atomspec.html>
>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Mar 16, 2022, at 4:45 PM, German Barcenas via ChimeraX-users <
> chimerax-users at cgl.ucsf.edu> wrote:
> >
> > Hello,
> > I am trying to place a centroid marker at the center of a selection of
> atoms, for example in the middle of a benzene ring that is at some
> arbitrary position in my system. I want to do some distance measurements
> here. I can do something like this:
> >
> > shape sphere color orange radius 0.25 center sel
> >
> > where the center sel places the sphere where I want, but these spheres
> can't be used to make measurements. Instead I think I need a marker object,
> such as:
> >
> > define centroid radius 0.25 color orange
> >
> > But I don't know how to recreate that `center sel` position. I have
> tried
> >
> > define centroid radius 0.25 color orange position center
> >
> > define centroid radius 0.25 color orange position center sel
> >
> > define centroid radius 0.25 color orange position sel
> >
> > These do not work. I am under the impression that the centroid is a
> marker object and should have some position argument. Can anyone help me?
> > Thanks,
>
>

-- 
German Barcenas
Ph.D Candidate | Materials Science and Engineering
Materials Modeling and Theory Group
Boise State University
germanbarcenas at u.boisestate.edu | 940-577-5094
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://www.rbvi.ucsf.edu/pipermail/chimerax-users/attachments/20220316/d157eafb/attachment.html>