[Chimera-users] retrieving assigned color and ribbon thickness

Sumitro Harjanto sharjanto at i2r.a-star.edu.sg
Tue Jan 4 19:15:22 PST 2011

Hi Elaine,

Actually, I use "render by attribute" tool to set (scale) the ribbons'
('Worms') thickness accordingly. So I din actually use the Ribbon style
editor. I understand I should be able to find the absolute thickness of
each residue in the session file (somewhere), but is there a relatively
simple way to find out the scale I have used for the worms thickness..? 

It's not really a big problem, I can always estimate the scale again, so
if it's complicated and having to dig deep into the session file then
it's okay. =] thanks!


-----Original Message-----
From: Elaine Meng [mailto:meng at cgl.ucsf.edu] 
Sent: Wednesday, January 05, 2011 2:23 AM
To: Sumitro Harjanto
Cc: Chimera-users at cgl.ucsf.edu
Subject: Re: [Chimera-users] retrieving assigned color and ribbon

Hi Sumitro,
You can use the Selection Inspector to get color RGB values.  For
example, you could Ctrl-click to select one residue's ribbon segment,
then click the green magnifying glass on the lower right corner of the
Chimera window to open the Selection Inspector, and then inspect
"Residue" -- there will be a square color well with the ribbon color,
and if you click that color well, the Color Editor will appear with that
color in it, and sliders showing the RGB values.  

When you were originally setting the ribbon dimensions in the Ribbon
Style Editor, if you saved the settings with a name, the name will be
shown as the "ribbon scaling" in the Residue part of the Selection
Inspector.   You would have to reopen the Ribbon Style Editor and go to
that name again to see what the corresponding dimensions were.  If you
didn't give the settings any name, however, I don't know of any easy way
to figure out the exact dimensions.  If you had a session file, it is
embedded in there somewhere, but I don't know how to find it.  Maybe
someone else can advise on that point.  However, clearly the better way
if you are starting anew is to give the settings a name in the Ribbon
Style Editor before applying them to the structure.

I hope this helps,
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Jan 3, 2011, at 9:40 PM, Sumitro Harjanto wrote:

> Hi Elaine, 
> I'm wondering if it is possible to retrieve the numerical (RGB) values
of the color & ribbon width that I have previously assigned to certain
residue(s). I often try out a certain color and save it in a session,
but when I come back to the session and try to apply the color to the
other residues I realized I forgot what's the RGB value I've assigned
and have to resort to visual inspection (which is not very accurate).
The same problem I have experienced with the ribbon thickness. Is there
a way for me to keep a record of / retrieve these values? Thanks!
> Cheers,
> Sumitro  

Institute for Infocomm Research disclaimer:  "This email is confidential and may be privileged. If you are not the intended recipient, please delete it and notify us immediately. Please do not copy or use it for any purpose, or disclose its contents to any other person. Thank you."

More information about the Chimera-users mailing list