don't use eof check in Kryo; use a magic number instead
simplified README example command
more efficient filtering in Common.loadReads
parallelism=0 now has a new meaning: run however many tasks as the read RDD is partitioned into
add truncatedString method to LociMap
better error msg if reads have no MDTag
loadReads now calls. reads.persist(). Better number formatting.
Support underscores and periods in contig names in LociSet
efficient serializer for LociSet (delegates to LociMap[Unit] serializer)
added scripts/guacamole-demeter convenience script
more efficient serialization for LociSet, LociMap
efficient truncatedString methods in LociMap, LociSet
fix for changes in RichADAMRecord.overlapsReferenceRegion() in ADAM
LociMap truncated string cleanup
Merge pull request #50 from hammerlab/distributed-debug

scattered fixes and optimizations as I've been trying to get this running on the cluster
Check scalariform results in (whitespace commit)
fix MD-tag of different_start_reads.sam's read 5
Merge pull request #51 from hammerlab/two_minor_fixes

Two minor fixes
Created simple somatic variant caller