Thanks for the extra input. Yes, I have video connected to the sub (strangely enough, via a bit CRT front projector) so I can see the visual cues for calibration.
However, I do not seem to get any sine wave sound. I can play music, and i can see the wave drift from left to right and it's clear that the microphone is picking up the music and reflecting the frequencies etc., but I can't seem to get any calibration sine wave sound.
If I press the standard 1-2-3 for general room calibration, I get about 20 or so pulses which shake the room, and that lasts about 1 minute, so I that seems to be working fine.
Just to clarify then, the recommendation seems to be to run my speakers full range, and connect the sub to my pream seperately, but focus the sub on lower frequencies only. I should start the sub where approximately my mains cutoff?
thanks again for the tips. I wish this calibration stuff was easier