Various bug fixes, supported on more operating systems, OSX, Ubuntu.

Bug fixes, small utilities for modified experimental design.

1.1 release, documentation update, Makefile update, dlib update.

1.0.3 release. Refactoring, renaming, and expanded SNV calling utilit……ies.

Further bug fixes for analysis, esp. depth. -i for rsq. Modified CLIs……. Modified tests to correspond.

Zlib compatibility issues, accessory analysis tool fixes.

BMFtools v1.0 release, passing thorough unit tests and large sample-s……cale tests, supporting both paired-end and single-end analysis.

Cleaned version for a v0.2.0 release

Merge pull requestARUP-NGS#26 from ARUP-NGS/devBug fixes for release

dmp, aligntagbam, main and a few other subcommands work.