There is provided an analysis apparatus in which congestion does not occur and whose analysis efficiency is high as a whole even when the apparatus is an automatic analyzing apparatus to which a plurality of functional modules having different functions and process performances from each other are connected. Also, there is provided an automatic analysis system in which, even when a new functional module is added, it is not required to consider influence on the existing functional modules and restructure a carrying plan or others for improving process performances as a whole. Buffer units paired with the respective functional modules are connected to a specimen carrying line, and an operating-section computer issues an instruction for carrying to the respective functional modules in accordance with requests for specimens, so that carrying-in/out operations are performed as managing respective carrying-possible states among the buffer units and functional modules.