added a command line tool for integrating with Inferelator
added JSON cluster stack parsing
added to README file
added to inferelator script README
test can be run with xml option for continuous integration
updated inferelator parameters
started work on improved membership class
experimental: using new version of cluster membership class
update is now based on availability of free slots
added more tests for Orig membership
added reverse map for membership
OrigMembership is now implemented with array.array for reduced memory footprint
fix: stored 4711 as gene_num in motif_pvalues
fixed bug in cluster replacement
updated some row cluster assignment
found an appropriate implementation of row update
column memberships change accordingly
membership reimplemented using a Numpy table for memory saving
updating clusters now uses the numpy array as well
membership can run successfully, changed data type to int32 to save memory