introduction: added reference to our Bell simulation letter
c-numbers: edited style, added more explanatory text
c-numbers: changed title
func-calculus: refactored first section
thesis: using 12 pt font

If I decide to reduce it to 11pt later, the equations will only get smaller,
but if I wanted to increase it from 11pt to 12pt later I would have to go through the whole thing
looking for overfill equations.