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There is a switching time that you need to accommodate for when configuring the voltage level of a digital line to avoid reading incorrect data or temporarily outputting an unexpected voltage. Do not set the logic family for the DIO while reading from or writing to a digital line. Refer your USB R Series device specification document for more information about switching time.
There is also a switching time for the voltage level of a digital line during powerup. The digital line is at 1.2 V during powerup. The USB R Series device will ramp up to the selected logic family voltage and the DIO can start executing in a single-cycle timed loop before the ramp up is complete.
You can use one of the following methods to accommodate for the switching time when configuring the voltage level or during powerup.