A system for controlling the position of a diaphragm (106, 206, 314, 330) in a diaphragm-containing pressure pod (100, 200, 302, 304), the system comprising; a fluid pump: a pressure pod (100, 200, 302, 304) comprising an interior (116, 216) defining a flow-through fluid side (114, 214) and a gas side (120, 220, 316, 332), the flow-through fluid side and the gas side being separated from one another by a diaphragm (106, 206); a fluid conduit in fluid communication with the flow-through fluid side and operatively positioned with respect to the fluid pump such that the pump can move fluid through the conduit and force fluid through the flow-through fluid side of the pressure pod; a pressure sensor operatively connected to the gas side of the pressure pod and configured for sensing pressure resulting from movement of the diaphragm; a gas source in fluid communication with the gas side (120, 220, 316, 332) of the pressure pod and comprising a valve configured to provide fluid communication between the gas side and the gas source, the valve also being configured to interrupt communication between the gas side and the gas source; and a controller configured to receive a pressure signal generated by the pressure sensor, compare the pressure signal received to a predetermined pressure signal that corresponds to a signal generated during normal operation of the pressure pod (100, 200, 302, 304), under normal operating pressures and where the diaphragm (106, 206, 314, 330) is properly or optimally positioned, calculate a difference between the pressure signal received from the pressure sensor and the predetermined pressure signal, and control the valve in response to the calculated difference, wherein the control of the valve controls pressure in the gas side (120, 220, 316, 332) of the pressure pod, which in-turn controls the position of the diaphragm. a pressure pod (100, 200, 302, 304) comprising an interior (116, 216) defining a flow-through fluid side (114, 214) and a gas side (120, 220, 316, 332), the flow-through fluid side and the gas side being separated from one another by a diaphragm (106, 206); a fluid conduit in fluid communication with the flow-through fluid side and operatively positioned with respect to the fluid pump such that the pump can move fluid through the conduit and force fluid through the flow-through fluid side of the pressure pod; a pressure sensor operatively connected to the gas side of the pressure pod and configured for sensing pressure resulting from movement of the diaphragm; a gas source in fluid communication with the gas side (120, 220, 316, 332) of the pressure pod and comprising a valve configured to provide fluid communication between the gas side and the gas source, the valve also being configured to interrupt communication between the gas side and the gas source; and a controller configured to receive a pressure signal generated by the pressure sensor, compare the pressure signal received to a predetermined pressure signal that corresponds to a signal generated during normal operation of the pressure pod (100, 200, 302, 304), under normal operating pressures and where the diaphragm (106, 206, 314, 330) is properly or optimally positioned, calculate a difference between the pressure signal received from the pressure sensor and the predetermined pressure signal, and control the valve in response to the calculated difference, wherein the control of the valve controls pressure in the gas side (120, 220, 316, 332) of the pressure pod, which in-turn controls the position of the diaphragm.