2.1.0

[2.1.0] - 2022-05-12

Added

• 🐍autometa entrypoint to retrieve info on --citation, --version and no argument lists other autometa commands
• 🍏 The autometa version is written after completion of each autometa-related nextflow process
• 🐚 The autometa version is emitted at the beginning of the autometa bash workflow.
• 🐍 NCBI.py will now search delnodes.dmp for any taxids retrieved from blast output and convert to root (taxid=1)

Fixed

• 🐚🐛 Renamed incorrect variables $coverage to $coverages and $clustering_method to $cluster_method in workflows/autometa.sh
• 🐍🐛 Fix use of kwargs in kmers embed(..., *kwargs) function
• 🐍🐛 Fix passing n_jobs to kmers embed(..., n_jobs=1) function
• 🍏 🐳Add params.autometa_image_tag to mock_data_reporter process
• 🍏 🐳 Add params.autometa_image_tag to get_genomes_for_mock process

Dependencies

• ⬆️💚 Pinned black version to 22.3.0
• ⬆️:green_apple: upgrade diamond to version 2.0.14

Removed

• 🔥💚 Removed tests/requirements.txt and consolidated to tests/environment.yml

What's Changed (from the git logs)

• 🎨🐍 Add taxid conversion from 'unclassified' to 1 for taxon-profiling benchmarking by @WiscEvan in #260
• 📝 Update installation directions for bash workflow by @WiscEvan in #262
• 🐍🐛 Fix parsing taxids to delnodes set by @WiscEvan in #265
• ⬆️ 🍏 Upgrade Diamond 2.0.9 -> 2.0.14 by @chasemc in #264
• 🎨🐛🐍 Add n_jobs to embed(...) func. Replace **method_args w/ **method_kwargs by @WiscEvan in #267
• Versioning by @WiscEvan in #269
• 🎨🍏 Add autometa --version to autometa nextflow files by @WiscEvan in #271
• 🐛🐚 Fix variable name for autometa-binning-summary by @WiscEvan in #272
• Release 2.1.0 by @WiscEvan in #273

Full Changelog: 2.0.3...2.1.0