Version 0.6.0

Big change is adding GROOT support

Full Changelog:

• argNorm supports the GROOT v1.1.2 ARG annotation tool: https://github.com/will-rowe/groot
• GROOT support is via the GrootNormalizer (for use in python scripts) and the groot tool parameter with the groot-db, groot-core-db, groot-argannot, groot-card, and groot-resfinder db parameters in the CLI.

Other

• __version__ attribute added to the package (accessible as argnorm.__version__ or argnorm.lib.__version__)
• Use atomic writing for outputs (https://github.com/untitaker/python-atomicwrites/tree/master)

funcscan integration

• argNorm has been included as an nf-core module: https://nf-co.re/modules/argnorm/
• argNorm will also be available on the funcscan pipeline: nf-core/funcscan#410

DB harmonisation

• SARG db link was changed in crude_db_harmonisation to https://raw.githubusercontent.com/xinehc/args_oap/a3e5cff4a6c09f81e4834cfd9a31e6ce7d678d71/src/args_oap/db/sarg.fasta as old link (Galaxy instance, http://smile.hku.hk/SARGs) is down
• RGI outputs in crude_db_harmonisation are concatenated so frequencies of perfect, strict, and loose hits can be calculated from concatenated file