[Chimera-users] change segmented object colour

Deran Reddy Deran.Reddy at wits.ac.za
Wed Oct 29 11:10:13 PDT 2014


Hi Elaine, 

Thank you so much for the help, you are a star! It's amazing how one can overlook a simple thing such as this, thankfully experts like yourself are there to put us back on track.

Kind regards

Deran 
________________________________________
From: Elaine Meng [meng at cgl.ucsf.edu]
Sent: 29 October 2014 07:41 PM
To: Deran Reddy
Cc: chimera-users at cgl.ucsf.edu; plcnguyen at gmail.com
Subject: Re: [Chimera-users] change segmented object colour

Dear Deran Reddy,

You can just Ctrl-click on the surface to select it, then use main menu Actions… Color… [etc.]  The menu includes some colors but also “from editor” to bring up the Color Editor, and “all options” which shows a dialog with options including showing more colors.  Sometimes the Color Editor gets behind some other window, so you can also call it up with main menu: Tools… Utilities… Color Editor.  You would still need to use the Actions menu to apply the color to the selected surface(s).

Another way to color the surface(s) you have selected (with Ctrl-click, Shift-Ctrl-click in the main window) is with a command, e.g.:
color hot pink sel

Further, you can color the segmentation region surfaces to show the values of some property or attribute such as the number of grid points inside each region, using the Render by Attribute tool (in main menu under Tools… Depiction).

See Segment Map docs, including description of attributes:
<http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/segger/segment.html>

Render by Attribute:
<http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/render/render.html#render>

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

On Oct 28, 2014, at 4:45 PM, Deran Reddy <Deran.Reddy at wits.ac.za> wrote:

> Dear Sir/Madam
> Please could you provide instructions on how to change the color of a segmented object created by using (segger) segment map function. I cant find a color editor to change this color, such as that for the volume viewer.
> Any help would be greatly appreciated.
> Kind Regards
> Deran Reddy

=
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