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bio_hansel v0.2.0

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@peterk87 peterk87 released this 04 Oct 15:25
· 284 commits to master since this release

Added:

  • testing for fastq files, changing input of fasta file to match README documentation
  • Travis CI testing; empty __init__.py file that is required to run pytest for CI

Updated:

  • #11: schema for Enteritidis to 0.7.0.
  • tests
  • readme; install instructions

Fixes:

  • #4: added version to SCHEME_FASTAS in utils.py and added to Subtype and pd.DataFrame
  • #3: check sys.argv length on main.py commandline execution and print help on no args
  • #6: Changing all *_total fields to *_expected
  • #7: Filtering out unwanted columns in FASTA output
  • #10: > to >= in find_inconsistent_subtypes in utils.py; Added tests for enteritidis subtyping scheme