v1.2.3

Changed

• Reconcile workflow with wf-template v5.2.6

v1.2.2

Changed

• Updated abricate container to support EPI2ME Cloud, the version of abricate remains unchanged.

v1.2.1

Changed

• Reconcile workflow with wf-template v5.2.5

Fixed

• Workflow runs to completion if flu type is undertermined
• Bug when using custom blast_db

v1.2.0

Added

• --override_basecaller_cfg parameter for cases where automatic basecall model detection fails or users wish to override the automatic choice.

Removed

• The --medaka_consensus_model parameter as the appropriate Medaka model is now automatically determined from the input data.
• The now redundant --basecaller_cfg parameter as its value is now automatically detected from the input data on a per-sample basis.

Changed

• Updated Medaka to v1.12.0
• Reconciled workflow with wf-template v5.1.4

v1.1.0

Changed

• Downsampling is no longer run by default
• Reduced test data sample size
• Some formatting in github issue template

Fixed

• Downsampling behaviour reworked to better catch errors from custom fasta references
• Reports are generated when no samples have met the criteria for nextclade analysis

Added

• RBK compatibility flag

v1.0.1

• Updated docs

v1.0.0

Changed

• Updated docs
• Cloud readiness

v0.0.11

Changed

• Output directory structure change
• Adjusted size and positioning of badges to improve layout of typing table
• Nextflow minimum version 23.04.2.

v0.0.10

Updated

• Update to schema to point to cloud demo

v0.0.9

Changed

• Update licence to ONT Public License
• Made --sample_sheet an optional parameter
• Improved Typing table in report to make typing results clearer