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. <http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/render/render.html...> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/rangecolor.html> Surely it could be done with python scripting, but somebody else would have to advise on that. Best, Elaine ----- 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@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.