A multi-channel positive displacement piston pump apparatus includes a motor and a plurality of positive displacement piston pumps driven by the motor. The plurality of pumps are aligned in a stacking direction, and each pump has an intake port and an outlet port, wherein the intake ports and the outlet ports of all pumps face in the same direction generally perpendicular to the stacking direction. In a method for retrofitting a positive displacement piston pump for use in a multi-channel pumping apparatus, an outlet port of a pump housing of the pump and a flush outlet port of the pump housing are plugged and an alternative fluid path is formed within the pump housing. The outlet port is disposed in line with an inlet port of the pump housing but on an opposite side of the pump housing. The flush outlet port is disposed in line with a flush inlet port of the pump housing but on an opposite side of the pump housing. In this way, the alternative fluid path is formed between the inlet port and the flush inlet port.