[chimerax-users] Orientate models

[Yanhe Zhao]

Dear Elanie,

Thanks a lot for favorable reply.
My reference model is a map and has been moved separately. I will have it
figured it out.

Thanks and best,
Yanhe

Elaine Meng <meng at cgl.ucsf.edu> 于2022年9月23日周五 13:21写道：

> Hi Yanhe,
> If the reference model has *not* been moved separately from the scene, the
> following might work:
>
> view orient
>
> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/view.html#initial>
>
> However, if the reference model has been moved separately from the scene,
> there isn't a simple way to do it.  As I understand it, we would need to
> enhance ChimeraX so that "view zalign" could take a vector specification as
> well as a coordinateSystem option to say that that vector is defined in
> the  coordinate system of the reference model.  Currently "view zalign"
> takes an axis-spec, but that is the model number of an axis object
> previously defined with "define axis."  (And although "define axis" can use
> two x,y,z points it does not have a coordinateSystem option, so the x,y,z
> points are always defined in scene coordinates, not the coordinates of a
> specific model.)
>
> Eric points out there is a horrible way to do it if the reference model is
> an atomic structure:
>
> (1) open another copy of the same atomic model
> (2) matchmaker the original reference model onto the newly opened copy,
> **using the "bring"  option to also move all the other models at the same
> time**
> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/matchmaker.html>
> (3) use "view orient"
> (4) close the extra copy (if you want)
>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Sep 23, 2022, at 10:47 AM, Yanhe Zhao via ChimeraX-users <
> chimerax-users at cgl.ucsf.edu> wrote:
> >
> > Dear Developer,
> >
> > I have aligned all my models to one reference model, What is the right
> way to orient all models based on reference model's xyz axis? (They have
> different coordinate system)
> >
> > Thanks and best,
> > Yanhe
>
>
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