Just a suggestion... at this stage, I would prime the interior first, prime the Roll cage separately, prime the roof panel off the car!
Fit roll cage, after grinding off primer where its to be welded, weld in roll cage, fabricate filler plates to anchor the "A" and "B" posts to the roll cage (Essential)
Seam weld all joints on the "Cant rail" and look at putting in some supports tied into the rear pillars up to the "Cant rail" or some sort of hoop that goes from the rear strut tops, to the roof, tied in to the "B post' hoop, this would retrieve the strength that has been lost
I would then paint interior, and roof separately, roof can be bonded on after with Airbag compliant windscreen sealer, around the fitting edges, assuming that all joints are hidden under the screen rubber etc...
Car should be sitting on level ground, and on its wheels, with the doors fitted, to check alignment before welding in the cage takes place, NO AXLE STANDS!
Transverse roof panel supports should only be bonded after the car has been built up! dimples may appear!
Thom