Especially for when displaying a surface, I find the
white hydrogens unsatisfying.
I would like a color scheme that colors all atoms
standard colors, except for hydrogens, which are to be
colored according to the color of the atom they are
bonded to.
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# use per-atom colors to color bound hydrogens:
color nitrogen, hydro bound_to elem n
color oxygen, hydro bound_to elem o
color sulfur, hydro bound_to elem s
color carbon, hydro bound_to elem c
or
set surface_mode, 2
to ignore hydrogens when generating the surface