v3.0.0 - Update to core analysis

This release includes change to input files which make the legacy SnpGcCorrections.tsv et.al. incompatible. Please see the wiki pages for how you can build new versions.

Key points:

• Deprecated command line options
  • -snp_loci and -snp_pos are no longer required, warnings emitted if provided but continues to function (for now).
• Now generates segments on Y chromosome when appropriate.
• All required files generated from -snp_gc on the fly. Resulting analysis has a theoretically higher resolution (and number of SNPs ~doubled for GRCh37)