Finished Code Reformatting

[Adam Lally <al...@alum.rpi.edu>]

The Eclipse source reformatting has now been run on all of our source
code.  Hopefully, now if everyone sticks to our code conventions we
won't have formatting issues confusing our diffs.

I also did my best to fix trivial compiler warnings throughout (except
I didn't do the test cases).  So it may be worth looking into any
warnings that are left, after you turn off the very noisy ones I
mentioned in my other notes.

-Adam