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The Cyber-Physical Energy Systems (CPES) represent a new class of widely distributed and globally interconnected energy systems that integrate computation processes, communication processes and control processes. The architecture design and verification in a CPES development is a key works. In this paper, a new CPES application architecture is proposed based on the features of energy systems, such as heterogeneous, reliability, autonomy, etc. In addition, an experiment of intelligent charging system for electric vehicles is taken based on CPES architecture, and its architecture is also proposed and proved to be suitable for the concept and features of CPES.