The dots not changing color is certainly a bug that will be fixed in
10.9.47 (later today).
As for the action of restrict, this is intentional. (That is, a feature,
not a bug.) Let's discuss what we really mean by dots. Here's the deal:
Note that dots do not simply surround an atom. They take
There appear to me to be bugs that hide dots inappropriately with
restrict and dots off commands. These bugs are present in 10.2.0 and
10.x.46d. If those in the know agree that these are bugs, I'll submit this
as a bug fix request.
Jmol, to its credit and unlike Chime, can add dots to newly
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