A fundamental problem in the design of closed-loop Cyber-Physical Systems (CPS) is in accurately capturing the dynamics of the underlying physical system. In the context of modeling buildings to improve their energy efficiency, the modeling difficulty arises due to the fact that each building is designed and used in a different way and therefore, it has to be uniquely modeled (Heterogeniety). Furthermore, each building system consists of a large number of interconnected Heating Ventilation and Air conditioning (HVAC) subsystems which interact in a complex manner and are subjected to time varying environmental conditions (Complexity). Small and medium sized buildings constitute more than 90% of the commercial buildings stock in the United States, but only about 10% of such buildings are equipped with a building automation systems. The market penetration of intelligent building control will only increase if the cost of capturing the building models is reduced.