In one aspect, a method is described. An operational engine torque is calculated. The engine is operated in a skip fire manner to deliver the operational engine torque. A reference engine torque is calculated using a torque model. The torque model involves estimating torque at a working chamber level. The reference engine torque is compared to the calculated operational engine torque to assess the accuracy of the operational engine torque calculation. Various embodiments of the present invention involve software, devices, systems and engine controllers that are related to one or more of the above operations.