AstrobioMike/bit: v1.13.9

Added

• bit-get-cov-stats by default now produces per-contig level info also (can be shut off with --skip-per-contig)

Changed

• bit-get-cov-stats
  • the original ref-based output file is now called <output-prefix>-per-ref.tsv (changed from <output-prefix>.tsv)
  • outputs include median coverage in addition to mean
  • for speed (and consistency with expectations of known most-frequent users), when bit-get-cov-stats runs mosdepth, it uses the -x | --fast-mode flag now
  • added progress bar when parsing coverage info
• bit-assemble
  • re-arranging of help menu
  • memory setting now passable to spades too
• report_message function from modules.general slightly altered
  • this is more a note to myself for if/when i see weird things in terminal-printing format show up later
• general help-menu formatting

Full Changelog: https://github.com/AstrobioMike/bit/compare/v1.13.8...v1.13.9