2.5.3

2.5.3

• Correct container image name

2.5.2

2.5.2

• chore: Parameterise container prefix
• ci: Remove unused manual docker action
• fix: ensure CFZ is properly passed into the resistance prediction summary

2.5.1

What's Changed

• Release/2.5.0 by @bobturneruk in #101
• fix: pass through Complex flag for complex VCF row evidence by @JeremyWesthead in #106
• chore: update changelog by @JeremyWesthead in #108
• Release 2.5.1 by @JeremyWesthead in #110

Full Changelog: 2.5.0...2.5.1

2.5.0

Changes for nextflow linting and better local running

Fix

• use tuples for channels
• rename test container param to be specific
• enable use of a glob for providing input reports (for local use)
• Correctly report mykrobe depth and coverage against lineage

Chores

• Adopt Nextflow linting via Nextflow language server
• Remove redundant lines for error report and DSL2
• add publish_dir option
• add nf-test config

2.4.7

What's Changed

• fix: strip whitespace from pipeline build by @JeremyWesthead in #95

Full Changelog: 2.4.6...2.4.7

2.4.6

What's Changed

• fix: remove debug and useless logging by @mcolpus in #91

Full Changelog: 2.4.5...2.4.6

2.4.5

What's Changed

• Mmm931/simplify naming by @mcolpus in #90

Full Changelog: 2.4.4...2.4.5

2.4.4

What's Changed

• docs: Explain how mykrobe species is used in naming by @bobturneruk in #87
• fix: expand mapping csv and add generic lineage case by @mcolpus in #89

Full Changelog: 2.4.3...2.4.4

2.4.3

What's Changed

• Mmm 781 document summary step of myco pipeline by @bobturneruk in #84
• Add basic nf-test to CI by @bobturneruk in #85
• Correctly report the species name for M. canettii by @bobturneruk in #86

Full Changelog: 2.4.2...2.4.3

2.4.2

What's Changed

• M. avium subsp. silvaticum (MAC) misreported by @bobturneruk in #82

Full Changelog: 2.4.1...2.4.2