> It's certainly an interesting challenge -- the goal, to provide a
> "snapshot" of the state of the system.
[snip]
>
> Let's see what Miguel thinks.

Miguel is explicitly sitting on the sidelines to watch this discussion.

At one extreme, RasMol supports this in a very simplistic way ... select
each atom/bond/etc. and set its characteristics one by one.

At the other extreme, an 'optimal' solution is not possible.

Between those extremes, I think that there lots of room for
experimentation. I think that you need to come up with a set of heuristics
and try it out.


Miguel



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