First and second inputs are associated with a port. Logic produces indications to software to cause the first input and second input to appear as a single input to the software. The logic produces an indication that no signal is present on either the first input or the second input. When a port bypass controller is coupled to the port, the logic produces an indication that both the first and second inputs are bypassed. When the port bypass controller is coupled to a Fibre Channel arbitrated loop, the logic produces a first signal to control whether the first input is included on the Fibre Channel arbitrated loop or bypassed, and a second signal to control whether the second input is included in the Fibre Channel arbitrated loop or bypassed.