A method of delivering radiation in a session includes delivering radiation towards a patient using a radiation system, wherein the radiation is delivered based at least in part on a physiological phase or a position of the patient, after the radiation is delivered, changing a configuration of the radiation system, wherein the act of changing the configuration is performed independent of at least one motion of the patient, and delivering additional radiation towards the patient after the configuration of the radiation system is changed, wherein the acts of delivering radiation and the act of changing the configuration are performed in response to a processor executing a treatment plan that prescribes a plurality of packages and a transition, the transition prescribing the act of changing the configuration of the radiation system when no radiation is being delivered by the radiation system.