An embodiment of an integrated atom chip used for measuring atoms is discussed. One or more magnetic traps integrated with an optical waveguide that is imprinted onto the integrated atom chip facilitate loading of the atoms into an evanescent field optical trap of the optical waveguide in order to measure the atoms. The two or more stages of cooling are used to progressively cool the atoms from an initial temperature down to a final temperature of the atoms when mode matched and loaded into the evanescent field optical trap of the optical waveguide.