Jsdoc fixes

I've got jsdoc3 running over our annotated javascript and producing its default documentation.
It's pretty cool.

I had to clean up a bunch of our documentation somewhat and work around a couple of bugs in jsdoc.

This pull contains all the changes I made, along w/ the jsdoc configuration file.

I may zip the output folder of doc I built for you to dump up on your dropbox so everyone can see it, until we see what's involved in getting you (and everyone else) able to build it locally.