A main reference point PM is provided to a base portion of a shape measuring apparatus including a rotary table. An origin-point relative-value registration includes measuring a main reference point with a probe to acquire a coordinate value of the main reference point and registering as a calibration-reference-point coordinate value Pp, registering a rotation center point of the rotary table as a calibration-rotation-center coordinate value Rp, and calculating a relative coordinate value of the calibration-rotation-center coordinate value Rp with respect to the calibration-reference-point coordinate value Pp and registering as a rotary-table origin-point relative coordinate value ΔD