Electronic voltage transformers (EVT) and electronic current transformers (ECT) are important instruments in a digital substation. For simple, rapid and convenient development, the paper proposed an on-site calibration system for electronic instrument transformers based on LabVIEW. In the system, analog signal sampling precision and dynamic range are guaranteed by the Agilent 3458A digital multimeter, and data synchronization is also achieved based on a self-developed PCI synchronization card. To improve the measurement accuracy, an error correction algorithm based on the Hanning window interpolation FFT has good suppression of frequency fluctuation and inter-harmonics interference. The human-computer interface and analysis algorithm are designed based on LabVIEW, and the adaptive communication technology is designed based on IEC61850 9-1/2. The calibration system can take into account pairs of digital output and analog output of the electronic voltage/current transformer calibration. The results of system tests show that the calibration system can meet the requirements of 0.2 class calibration accuracy, and the actual type test and on-site calibration also show that the system is easy to operate with convenience and satisfactory stability.