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2.3.0

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@pchaumeil pchaumeil released this 09 May 00:11
· 121 commits to master since this release
2.3.0
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Learn about vigilant mode.

Bug Fixes:

  • (#508) (#509) If ALL genomes for a specific domain are either filtered out or classified with ANI they are now reported in the summary file.

Minor changes:

  • (#491) (#498) Allow GTDB-Tk to show --help and -v without GTDBTK_DATA_PATH being set.
    • WARNING: This is a breaking change if you are importing GTDB-Tk as a library and importing values from gtdbtk.config.config, instead you need to import as from gtdbtk.config.common import CONFIG then access values via CONFIG.<var>
  • (#508) Mash distance is changed from 0.1 to 0.15 . This is will increase the number of FastANI comparisons but will cover cases wheere genomes have a larger Mash distance but a small ANI.
  • (#497) Add a convert_to_species function is GTDB-Tk to replace GCA/GCF ids with their GTDB species name
  • Add --db_version flag to check_install to check the version of previous GTDB-Tk packages.
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