⚠️ SERVICE NOTICE: This instance will be decommissioned 1 december of this year (2026).
Please migrate your projects to our new repository:
https://gitrepo.service.rug.nl
- taxonomy build: released taxa (since v2.0.0) that are missing are restored from their
last release with their old code and last known status, and are exempt from later
removals (decision by Matthijs S. Berends)
- exceptions are retired on purpose in data-raw/microorganisms_files/mo_code_retirements.csv
with a reason: other organisms with the same genus name (e.g. the Graphium butterflies,
wrongly in the Fungi until v3.0.1) and taxa whose genus is now only known in another
domain; as.mo() translates these codes to NA with that reason
- synonyms without a current name are linked to an accepted name in the same genus that
only differs by a Latin gender ending (e.g. Candida glabratus -> Nakaseomyces glabratus)
- placeholders such as "(unknown class)" never become records; codes of manually added
records are matched by domain and name
- integrity rule released_taxon_missing; known defects of the data on main updated
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
dr. M.S. (Matthijs) BerendsandClaude Opus 5.5
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