[chimerax-users] cut-through session color

[Elaine Meng]

Hi Steve,
Your image is from Chimera (not ChimeraX) so maybe you mean in Chimera?

There are two different mailing lists: chimera-users at cgl.ucsf.edu and chimerax-users at cgl.ucsf.edu

In Chimera, you can specify the planar cap color in the "Surface Capping" tool opened by clicking "Surface capping..." on the Per-Model Clipping tool, or directly from the menu under Tools... Depiction.

<http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/per-model/per-model.html>
<http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/surfcapper/surfcapper.html>

ChimeraX does not yet have per-model clipping (clipping the surface but not the structure). However, clipped surfaces have a planar cap with many ways to color them, including:

select cap with mouse (Ctrl-click), use menu Actions... Color... [choose color]

specify directly in command line by model number (use Model Panel to find out number), e.g. command:
color #1.2.1 cyan
transparency #1.2.1 50

See also ChimeraX command "surface cap"
<http://rbvi.ucsf.edu/chimerax/docs/user/commands/surface.html#cap>

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Jun 14, 2020, at 8:11 PM, Steve Chou <stevezchou at gmail.com> wrote:
> 
> I mean “the color of the cutting plane in a section view”. Sorry for any confusion.
> Steve
> 
> On Sun, Jun 14, 2020 at 8:44 PM Steve Chou <stevezchou at gmail.com> wrote:
> Dear ChimeraX developers and users,
> Is it possible to define the color surface cut-through sessions? Thanks in advance!
> Steve