This is something people don't seem to realize. Some film will not survive the mechanical nature of automated scanning. The very act of unspooling the deteriorated film can destroy it. I have no experience with this specific microfilm, but have seen plenty of reels of 16mm and 35mm film just fall apart on a telecine unit. The tensions involved will rip apart weakened film stock. A good telecine operator will manually inspect film reels by winding them by hand. This was much more convenient when the film was left wound at "tails" since the operator would need to wind it back to the "head" anyways. This also allows the operator to determine if the film is warped beyond the abilities of the telecine. If it is too warped, maintaining proper focus is nigh impossible in real-time. High end scanners that are not real-time actually have a mechanism to "gently" press each frame flat to help counter this warping.
All of this to say that the digital scanning of a large archive like this with very much known deteriorating stock will not be done in any manner of "automated" way like the GP suggests.