Yep, use plumb bobs to make sure the wings are parallel. Also pull a tape measure from dead center on the aft bulkhead to the very outside tip of the main spar web to make sure that the wings are perpendicular to the fuselage.
And quadruple check the incidence and edge distance(s) before you drill the aft spar attach point. Use a block of wood or some other assist device to make sure the hole you drill is perpendicular to the rear spar.