Added in Class Indexing.
Added in Module support.
Updated test cases for lucene search. Added group collection for improved search response.
Removed unused collector.  Leveraging the TermFirstPassGroupingCollector instead.
Moved classes to appropriate package.
Fixed bug in the joining of modules to archives.
Cleaned up sysouts from test.
Added the LuceneModuleIndex.
Merge branch 'master' of https://github.com/windup/windup
Worked around current issue of creating junk hints based on what should be candidate issues.

Also, changed log statement to debug from info.