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Information systems are wildly used in various areas, they bring many benefits as well as some inevitable security issues. It is a complex task to evaluate the security states of information systems. In this paper, by combining with the theory of grey clustering analysis and whitenization weight function, a security evaluation method for information systems is proposed. We present an example of applying the method to assess the security states of information systems, and the results show that the method can evaluate the security states of information systems properly and effectively.