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Remove some unnecessary "dependencies" (to functions and expressions); documentation update

Pieter David requested to merge piedavid/bamboo:stopdepsatdefine into master

Two unrelated (and non-urgent) updates:

  • when an expression has been Define'd it can be used without its dependencies (typical case: modified jet collections can be used without the original momentum branches)
  • a bambooRun section for the user guide of the documentation

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