Joe showed me what was what with adding DAQ channels, and I have begun building a simulink model to acquire the PEM channels. 

My models is in: /cvs/cds/rtcds/caltech/c1/core/advLigoRTS/src/epics/simLink/c1pem.mdl

Next on the to do list in this category: test which input connector goes with which channel (hopefully it's linear, exactly as one would think), and give the channels appropriate names.