Release notes
- FULL ENV UPDATE REQUIRED with this release
- Curated final lineage call, lineage conflicts between scorpio and pangoLEARN/ UShER are resolved by taking the scorpio call. Any changes to the assignment are listed in the notes column (thanks @rmcolq).
- More flexible usher dependency until bioconda release for MacOSX
- UShER handles empty input in snakemake (thanks @AngieHinrichs).
Additional dependencies: pango-designation repository
If you don't wish to do a full env update running:
pip install git+https://github.com/cov-lineages/pango-designation.git
in the pangolin environment will install the additional repo. This provides the alias json file to pangolin directly from pango-designation.