Time has tipped the scales a bit in the did-he-or-didn’t-he question at the heart of John Patrick Shanley’s Pulitzer Prize-winning 2004 play Doubt: A Parable, opening tonight in a Roundabout Theatre Company revival at the Todd Haimes Theatre. Since the play about a possibly child-molesting priest made its Off Broadway debut 20 years ago, real-world events and ugly truths have lessened both its shock value and the likelihood that audiences will side with the man in black.