According to the present invention, for a water treatment facility including a plurality of unit process facilities in which a plurality of unit water treatment processes are respectively performed, a water treatment facility database in which three-dimensional structural model data for each of the plurality of unit process facilities is stored; Computation to calculate flow data for each of a plurality of set flow rates within an operating range in each of the plurality of unit water treatment processes as simulation flow data by performing a numerical analysis operation using computational fluid dynamics based on the three-dimensional structural model data fluid numerical analysis unit; a flow data estimation model for estimating flow data corresponding to a flow rate other than the set flow rate and calculating the flow data as estimated flow data; and a flow data determination unit configured to calculate in real time flow data corresponding to the measured flow rate in each of the plurality of unit water treatment processes and determine the flow data as real-time flow data, wherein the flow data determination unit is configured such that the measured flow rate is the set flow rate. In this case, it is determined as the real-time flow data from the simulated flow data, and when the measured flow rate is not the set flow rate, the estimated flow data calculated from the flow data estimation model is determined as the real-time flow data. A real-time diagnosis system for water treatment processes using numerical analysis is provided.
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