Add missing import to test scripts
New ant target to print the classpath
New function to sanitize file name strings
Fix missing imports
New demux output directory pattern project/sample
New demux tests for the new feature
Remove debug code
Add --separate-reads option to demux
Fix DemuxReducer unit test -- hadn't been updated for project/sample output
Catch bug forming id for sequences without an index
Fix bug in prq generating id for reads without an index sequence
Generate read directories under sample rather than as sample_readnum
Fix demux counters to count (project,sample)
Return self from set_* flag methods in mapping, to allow chaining
Don't require an input path when running with --header-only
Update AUTHORS
Fixed bad import
Merge branch 'master' of git://git.code.sf.net/p/biodoop-seal/code