Release 0.6.0

Release 0.6.0 introduces the following changes to existing tools:

• ReviewConsensusVariants: output PASS when there are no filters on the variant; fix format of bases output
• MaskPrimers: improved usage documentation to make primer file format clearer

The following API changes were also introduced:

• Added constants to SamRecord for SAM/BAM related constant values
• NeedlemanWunchAligner renamed to Aligner (old name deprecated by still works)
  • Implemented Glocal (or semi-global) alignment mode
  • Impleemnted Local alignment mode
  • Fixed affine gap implementation
  • Fixed Alignment.subByQuery/subByTarget to correctly handle adjacent deletions
• In metrics files, ensure 0.0 always formats as 0 and not 0E0
• Updated how Rscript finds resources in the classpath to support local paths and absolute paths with and without leading slashes