A method of operating a pump can include advancing a stepper motor one or more additional steps in a first direction after detecting a first change in a limit sensor state corresponding to a piston reaching an end of its travel in a first direction. After advancing the stepper motor the additional step or steps in the first direction, the stepper motor can be reversed and advanced in a second direction until a second change in the limit sensor state is detected. The stepper motor can then be advanced in the second direction a predetermined number of steps associated with a full travel of the piston.