This article uses attack tree model to analysis the RFID-based production line system security issues; gives the corresponding security policy according to the questions described by the attack tree mode model. Directional Faraday net is used to solve the problem of the safety of the RFID reader. The HASH chain is used to solve the problem of the RFID information security. Mutual authentication system based on digital signatures is used to solve the communication security issues. An overall information security management system is established to solve the whole security issues of the production line.