Hi Vishal,
Typically the Vcc and the GND of two different computer systems are different in potential. This will cause unwanted currents down the signal lines and could affect the acquisition of your data. There is also a small possibility that the currents could harm the circuitry of the board. So, in general, it is not recommended.
Yes, in pattern I/O mode you can use the DIO Config.vi handshaking parameters to alter the polarity of the REQ line. Although the title implies that the parameters are only used in handshaking mode, they are also valid for pattern generation/acquisition. You can specify whether you want the REQ to respond on rising edge or falling edge. The default is for rising edge and "no change" will not alter this parameter.
Usual
ly, when I am communicating between two 653x devices, I will generate data on the rising edge of the REQ signal and I will acquire data on the falling edge to ensure that there are no race conditions occuring. This is possible since the data travels down the cable at slightly different speeds.
Anyway, hope that helps. Have a good day.
Ron