Nowadays network application system (internet) is widely used not only for information system but also for automation system. This technology brings new paradigm in managing manufacture that we know as industry 4.0 or Smart Manufacture System (SMS). One of the architecture of SMS is Cyber-Physical System (CPS). Applying CPS on automation system becomes a challenge because there are not standard for integrating this architecture yet. Existing automation system today uses pyramid architecture for integration system from field level (level 0) to business level (level 4). CPS-based automation can replace the pyramid architecture, where on the CPS-based automation each layer on pyramid architecture seems to be able to communicate directly using network from field level through business level. In this paper, CPS-based automation is proposed using MQTT protocol on mini batch distillation column to separate mix liquid between alcohol and water. To apply CPS-based automation, it necessary develops embedded systems that meet the three disciplines of communication, computer, and control. To implement CPS-based automation, MQTT protocol is used for communication system. Modification on sensors and actuators are necessary to connect physical and cyber system over MQTT protocol. Database system is also required for data acquisition in a form of historian data. In terms of controlling, a local automation system is built for system startup.
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