Revert 9167c49 to allow calling run ... internally
#603
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cc #602
reverts 9167c49
This PR moves the globals initialization from
initializeback torun, where they were originally.This is done in order to allow developers to simply call
run ARGS...from any of their own function to execute their own functions using the same public CLI syntax.Documentation- the example is sufficient as we do not want to encourage this pattern