A few clarifications needed on QAOA/QAA tutorial

[Yoric]

If I read the tutorial correctly:

1. The tutorial ignores the diagonal terms.
2. The tutorial ignores the case in which a non-diagonal term is <0.
3. The tutorial can produce layouts with atoms that are too close to each other or too far from the center.

I believe that for each of these items, we should either complete the tutorial or clarify that the tutorial doesn't cover this aspect of the problem for the sake of simplicity.

(apologies for the initial formulation, my original phrasing sounded aggressive, that was not my intent)