Save results in appropriate places for the Matlab munging scripts.
Make CLI slightly more user friendly.
Updated run scripts to match new inference.exe CLI.
Store tree age in root node when loading trees, to facilitate uber tree analysis.
Do ubertree analysis from within inference.exe
Remove old ubertree Makefile target.
Keep a random log of 500 stability vectors, for producing distribution graphs.
Added some temporary working vectors to the GSL workspace object.
Compute a lot more (but not quite all) of the things the old distiller used to compute, as we do inference.
Bring main into alignment with recent refactorings.
Compute a little longer.