Tony is right. And the Surface Color user interface panel from Chimera has not been implemented in ChimeraX so you have to use the "color sample" command. I may add the Surface Color user interface panel in the next week or two since I am working on adding missing volume data user interfaces in ChimeraX right now. Tom
On Mar 9, 2021, at 10:43 AM, Anthony James Schaefer <tony.schaefer@uga.edu> wrote:
Colton,
I think you're looking for the sample and map keywords of the color command. I'm not sure if there's a tool for doing this like the Surface Color tool in Chimera.
https://www.rbvi.ucsf.edu/chimerax/docs/user/commands/color.html#sample <https://www.rbvi.ucsf.edu/chimerax/docs/user/commands/color.html#sample>
For example, I've got an electron isodensity surface in model #1 and the ESP in model #2. I can color the electron density based on the ESP with
`color sample #1 map #2 palette -0.024,red:-0.012,yellow:0,green:0.012,cyan:0.024,blue`
This will color #1 rainbow colors based on the ESP values between -0.024 to 0.024 from #2. The custom palette specification is the thresholds levels and colors separated by commas, with each of those separated by colons.
https://www.rbvi.ucsf.edu/chimerax/docs/user/commands/color.html#palette <https://www.rbvi.ucsf.edu/chimerax/docs/user/commands/color.html#palette>
I used color names, but there are several other ways to specify colors:
https://www.rbvi.ucsf.edu/chimerax/docs/user/commands/colornames.html <https://www.rbvi.ucsf.edu/chimerax/docs/user/commands/colornames.html>
Best,
Tony From: ChimeraX-users <chimerax-users-bounces@cgl.ucsf.edu <mailto:chimerax-users-bounces@cgl.ucsf.edu>> on behalf of Colton Carlson <cdc01@chem.ubc.ca <mailto:cdc01@chem.ubc.ca>> Sent: Tuesday, March 9, 2021 12:39 PM To: chimerax-users@cgl.ucsf.edu <mailto:chimerax-users@cgl.ucsf.edu> <chimerax-users@cgl.ucsf.edu <mailto:chimerax-users@cgl.ucsf.edu>> Subject: [chimerax-users] Volumes
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Hello,
I am just wondering if ChimeraX has added the ability to colour surfaces based on the values of a different surface? That is, input 2 cube files, then colour one cube file based on the values of the other. It is available in the other version of chimera, but the only information I could find on this was from 2018 and said it was not yet implemented in ChimeraX.
Thanks a bunch! Colton _______________________________________________ ChimeraX-users mailing list ChimeraX-users@cgl.ucsf.edu Manage subscription: https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users <https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users> _______________________________________________ ChimeraX-users mailing list ChimeraX-users@cgl.ucsf.edu <mailto:ChimeraX-users@cgl.ucsf.edu> Manage subscription: https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users <https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users>