Moving an HVAC unit in our coop

If the HVAC is part of the building's central heading/cooling (pipes delivering hot/cold water to a radiator unit with a fan that blows air across it), then building a wall 'over' it, so that part of it is in one room and part is in another, may be a problem, as the entire front panel of most units usually has to be accessible so it can be removed for servicing (changing filters, etc.).

If the building is willing, you might be able to replace it with two separate units (one in each room), but this will involve quite a bit of plumbing and electrical work, and the building may not permit it. If you are putting up a wall to divide the space, how else will you heat/cool the 'other' room?

Two separate units as suggested by Aaron so that each room has its own unit. Guessing the building supplies hot water and cold water for HVAC. It is not cheap as it needs plumbing and shutting down building system during install for a few hours.