Problem with running Comedi with EMC software

Hi,

For my University project, I need to do data acquisition from a milling machine from sensors that I have on the machine. But at the same time I would like to use the EMC software to control this milling machine. The data acquisition board I am using is a National Instruments PCI-6259. As there are no drivers supplied from National Instruments for this board on the Ubuntu platform, I am using Comedi for the data acquisition from the board.

But I have run into problems which involve not being able to run both the EMC software and the comedi driver at the same time. Why can't these software run together and how could I make them work together? Has anyone been able to overcome this problem? Any help would be appreciated. Thanks!