integrated rawProjector into pipeline

currently uses Projector.java (new code block to comment/uncomment)

moved some functions to Utils.java for future use by classes other than
Projector.java

created script, run-rawProjector, to run new algorithm
integrated Kmeans.java into pipeline

to do kmeans on raw documents
changed test and run-batch

to disable non-relevant tests and removed parameters that generated
uninteresting datasets
made munkres optional in util.py

will use tma and throw a warning if munkres is not installed