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I need some help with my Zoom R16 and Amplitude 3 in my Cubase LE6

I have my R16 plugged into my computer as an audio interface, and I wanna run my guitar through channel one (hi z) and put it through amplitude for distortion. I have my headphones plugged into my R16 in phones out. I hear the guitar I just cant put it through amplitude, nothing changes in the tone and the tuner isn't even picking it up.

Zoom R16 Adobe Audition CS5.5

Previously, I was using my Tascam US-1641 as an interface for my computer to record various projects. My only issue with the Tascam was that I hated adjusting the volume of the audio using the knobs on the interface. I picked up a used Zoom R16 because I liked the idea of using the sliders as opposed to the knobs to adjust the volume of a recording input.

Anyone have experience with The zoom R16?

I just bought one, can't figure out how to get the damn thing to work as an interface, I followed the instructions exactly included with the thing,
Here's the catch though,
I want to use BOTH of my audio interfaces, I have a Roland edirol UA-101, and the zoom R16, I want to use the zoom as the control surface and for more tracks...