v1.1.8

Incorporate resfinder updates from @zwets and hopefully fix bugs with amrfinderplus parsing (#87 #91)

v1.1.7

Correct release and version numbering to match one another in repositories.

v1.1.6

Fix pypi publishing

v1.1.5

Fixed resfinder v4.5.0 parsing thanks to @DanyMatute in #86

v1.1.4

Minor version bump to resychonrize library versioning with tag.

v1.1.3

Improve parsing of AMRFinderPlus based on recommendation from development team @evolarjun (https://github.com/evolarjun) to skip entries with "INTERNAL_STOP" in method (representing truncated likely non-functional ORF). Note: PARTIAL and PARTIAL_CONTIG_END (ORF continues past end of contig) still reported in hAMRonized results.

Zenodo Release

Minor release without any code changes to get zenodo to assign a DOI.

v1.1.1

Fix for unresolved empty summary bug (#80)

v1.1.0

• Adds support for fARGene retrieve gene file
• Resolves issue with RGI parsing when RGI is run on ORFs
• Addressing running hamronize or summarize on empty output files
• Add additional integration tests
• Add testing for interface outputs (empty parsed reports, empty summarised reports, mixed tsv + json in input)
• Add additional validation tests
• Closes all current external requests/established issues.
• Supersedes and closes #79 and should address #78

v1.0.4

What's Changed

• Update installation via conda in README.md by @thanhleviet in #51
• Update README.md by @thanhleviet in #55
• TB-Profiler IO by @jodyphelan in #62
• specify protein or nt variant by @jodyphelan in #63
• add tb tests by @jodyphelan in #64
• Changes to TBProfilerIO by @jodyphelan in #68
• Add draft parser for mykrobe by @pvanheus in #69
• Update parsers with new schema version by @cimendes in #76
• Update parsers by @fmaguire in #77
• Update AMR Gene Detection Scheme by @cimendes in #60

New Contributors

• @thanhleviet made their first contribution in #51
• @jodyphelan made their first contribution in #62
• @pvanheus made their first contribution in #69

Full Changelog: v1.0.3...v1.0.4