Alright, I believe the problem is my lack of doing research before buying things. These motor drivers are "direct drive" meaning the pulse to pin A will make it turn 1 step in that direction, and a pulse to pin B will turn it in the other direction, instead of step and direction pulses generated by EMC2. Is there some way to make EMC work with this? Are there any other controller softwares out there that will do this? (preferably linux)
I was told I could also build something like this and put it between the driver and parallel cable that would convert the signals appropriately: http://archive.electronicdesign.com/.../figure_01.gif