Geometric errors are clearly among the critical error sources in 5-axis machine tools and directly contribute to the machining inaccuracies. According to the definition of geometric errors of the rotary axis, different understandings have been exist in published studies. It is extremely dangerous as it makes the comprehension of the geometric errors ambiguous and may make the geometric error identification and compensation less effective. This phenomenon has not been noticed so far. In this paper, two different commonly used geometric error definition and modeling methods are firstly identified and analyzed, named as “Rotary axis component shift” and “Rotary axis line shift”. The features and relationships of these two error modeling methods are analyzed. After a detailed comparison, “Rotary axis component shift” is more suitable to definite the geometric errors of rotary axis. An experiment has been conducted on a 5-axis machine tool to show the correctness of our work. The results show that the identified geometric errors of rotary axis based on the two error models are greatly different and need to be concerned.