[Chimera-users] Command line equivalence for Render by Attribute radii

Elaine Meng meng at cgl.ucsf.edu
Fri Sep 13 08:25:50 PDT 2019

Hello Jurgen,
Sorry, there is no command-line equivalent for the “Radii” section of Render by Attribute, nor is there one for “Worms” — there’s only one for coloring, the “rangecolor” command.


Surely it could be done with python scripting, but somebody else would have to advise on that.
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Sep 12, 2019, at 1:09 PM, Sygusch Jurgen <jurgen.sygusch at umontreal.ca> wrote:
> Hello,
>     I cannot seem to find the command line equivalence for Render by Attribute radii. I am trying to display a tunnel where the atom B-factors represent the tunnel radius. I am able to display the tunnel as expected by using the GUI. 
>     In the GUI, when I do Tools --> Depiction --> Render by Attribute --> atoms --> My Model; then Render Attribute --> bfactor; Radii --> Atom Style --> Sphere, I get the expected result of the tunnel diameter varying according to Bfactor (tunnel radius).
>     What is the command line equivalence for doing this? I cannot seem to find it.
>     Thank you for looking into this.

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