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verify_taxa: also verify genus and infraspecific taxa #39

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peterdesmet opened this issue Feb 14, 2019 · 1 comment
Open
5 tasks

verify_taxa: also verify genus and infraspecific taxa #39

peterdesmet opened this issue Feb 14, 2019 · 1 comment

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@peterdesmet
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peterdesmet commented Feb 14, 2019

Update columns

  • bb_acceptedKeybb_suggestedKey
  • bb_acceptedNamebb_suggestedName
  • bb_acceptedKingdombb_suggestedKingdom
  • bb_acceptedRankbb_suggestedRank
  • bb_acceptedTaxonomicStatusbb_suggestedTaxonomicStatus

Processing

Not in backbone

Same as before

  1. Leave suggested_ fields empty

Genera

New

  1. Leave suggested_ fields empty
  2. If need be, verifier can add multiple species keys to verifiedKey

Infraspecific ranks

New

  1. For all taxonomicStatus!!
  2. Lookup info via speciesKey*
  3. Populate suggested_ fields with species parent
  • Note: unfortunately not all SYNONYM or even ACCEPTED taxa have this, e.g. https://api.gbif.org/v1/species/7707872 (maybe due to NAME_PARENT_MISMATCH). We will have to manually add the correct species keys in verificationKey for those.

Synonyms species

Same as before

  1. Lookup info via acceptedKey
  2. Populated suggested_ fields with accepted taxon

Accepted species

Same as before

@peterdesmet
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peterdesmet commented Feb 14, 2019

Looks like there are only 3 cases in our checklist where a speciesKey is missing:

bb_rank bb_key scientificName
SPECIES 2351211 Coregonus lavaretus (Linnaeus, 1758)
SPECIES 3922888 Anemone sylvestris L.
VARIETY 3922770 Aconitum napellus L. subsp. napellus var. giganteum (Dum. ex Thielens) J. Duvigneaud

Those are reported to GBIF (gbif/checklistbank#71), but can be solved manually in the verification file.

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