The invention relates to an intelligent substation secondary system rapid configuration method based on an information flow graph, and the method comprises an information flow configuration module which is used for carrying out management configuration on information flow; The information flow display module is used for calling the information flow display module to visually display the information flow after the information flow configuration module manages and configures the information flow; The interval configuration module is used for configuring an interval for the equipment of the transformer substation according to the voltage level, the wiring mode and the interval type; The model import module is used for analyzing and verifying the ICD model file; The data matching module is used for matching the data of the equipment; And the data verification module is used for verifying the connection condition between the devices. The method has the effects that the rapid configuration of the secondary system data of the intelligent substation is completed according to the information flow graph, and the correctness and integrity of the existing configuration data are verified by utilizing the protection logic in the information flow graph.