Hi Mathy, You are right that the surface color dialog does not update when you use the scolor command. I'll add that to our feature request list. Everything you are doing is right, just need to add the "offset 1.4" option to the scolor command so that the interpolated potential values are take 1.4 Angstroms from the surface. scolor #0 volume #1 cmap -15,red:-5,yellow:0,green:5,cyan:15,blue offset 1.4 Tom
Hi
I try to show the electrostatic potential calculated by apbs and written to a pot.dx file. This works fine when using the mouse / menus.
However I try to do this also using the command line interface because I need to repeat it many times.
$ chimera chimera.cmd
$ cat chimera.cmd:
open prod30.pdb
~ribbon : ~fillring : surface :
open pot.dx ~scolor #0 scolor #0 volume #1 cmap rainbow scolor #0 volume #1 cmap -15,red:-5,yellow:0,green:5,cyan:15,blue
I don't get an error but the surface is colored by volume data, not by electrostatic potential. Also the popup window "Surface Color" is not updated for the selected colors.
In the surface color popup I need to select color surface "MSMS surface" again, change "volume data value" to "electrostatic potential" and then push the button "Color". Then I get what I want, but unfortunately using the mouse again.
This should be done by the script too, I guess?
I m using the last stable chimera 64 version for unix on redhat.
best regards mathy