style; refactoring
switch to google style guide
more style on alem
major alem tweaks

Previously, if an ALEM run converged, it was moved to the last
layer and counted towards the final population. Now, converged
runs remain in the lower layers and are vulnerable to likelihood
checks. This has an effect of increasing average likelihood at
the cost of average number of iterations. 

In particular, performing 1000 trials on the BN alarm, the
following statistics were generated:


Number of iterations: alem-new.out                                                                                                   
Mean: 3.533333, Std: 0.570157                                                                                                        
                                                                                                                                     
Likelihood: alem-new.out                                                                                                             
Mean: -413.881087, Std: 3.998802                                                                                                     
                                                                                                                                     
Number of iterations: alem.out                                                                                                       
Mean: 3.081836, Std: 0.321066                                                                                                        
                                                                                                                                     
Likelihood: alem.out                                                                                                                 
Mean: -420.974041, Std: 3.375138
new alem tweaks finished!
start of new benchmarks
chmod; testing
optimizations; num reducers broken
multiple reducers working properly
gzip on serialized EM data
large population tst
cleanup
ready for ec2
typo in readme
hadoop version update to 1.1.1
population gzipped to single file
reducer memory usage significantly reduced