NI 6583 reading and writing

Hello,

I'm trying to communicate between two FPGAs without using P2P streaming or any use of the backplane. We have two FlexRIOs, 7972R, two adapter modules for LVDS interfacing, NI 6583, and an infiband cable for port connections. Essentially, a handshaking sequence occurs and data is exchanged between the two RIOs.

RIO1: Output "ready" signal, input "SYNC", CLK and data

RIO2: Output "SYNC" CLK and data, input "ready" 

When I run the attached code (Host code that controls the two FPGA vis), the input and output data do not match. I'm not sure if I'm missing something fundamental, or if the input is picking up noise from somewhere. I'm fairly new to LabVIEW so any direction would be greatly appreciated!

Thanks