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Reassess GBIF matching of name server #130

Closed peterdesmet closed 8 years ago

peterdesmet commented 8 years ago

We've completely reworked the GBIF name matching of name-server names. The T0 species are now filtered with the aggregated-checklist. If we compare this with the original matching in this old file, there are a couple of differences:

6 keys were added

This caused by names previously not matching GBIF (fixed by the August update) or new acceptedKeys included in T0.

INBSYS0000005537: Cotoneaster integrifolius
INBSYS0000045069: Procambarus fallax    
NBNSYS0000003426: Cotoneaster integrifolius
NBNSYS0000142699: Baccharis halimifolia
NBNSYS0200002802: Parthenium hysterophorus
NHMSYS0000461158: Oenothera victorinii

26 keys were removed

5 keys have become an accepted names and are not included in T0

INBSYS0000003949    Sorbaria tomentosa  3012117
INBSYS0000005315    Erigeron annuus (L.) Desf. subsp. septentrionalis   4219549
INBSYS0000032668    Pueraria montana var. lobata    2977647
NBNSYS0000014018    Sorbaria tomentosa  3012117
NHMSYS0000463792    Sorbaria tomentosa  3012117

7 names no longer match GBIF

Maybe because we weren't using strict matching before:

NBNSYS0000004434    Aster x salignus
NBNSYS0000014614    Cotoneaster x suecicus 'Coral Beauty'
NBNSYS0000014763    Cotoneaster x suecicus 'Skogholm'
NBNSYS0000042601    Cotoneaster horizontalis agg.
NBNSYS0000188809    Sargassum muticum
NHMSYS0000460488    Lupinus polyphyllus agg.
NHMSYS0000463917    Spiraea salicifolia agg.

14 names that don't pass synonym matching

nbn_recommendedTaxonVersionKey nbn_scientificName gbifapi_usageKey gbifapi_scientificName gbifapi_status gbifapi_acceptedKey gbifapi_acceptedScientificName nameMatchValidation
INBSYS0000033057 Pueraria lobata 2977654 Pueraria lobata (Willd.) Ohwi SYNONYM 2977647 Pueraria montana var. lobata (Willd.) Sanjappa... ok: SYNONYM confirmed
INBSYS0000009681 Oenothera depressa 6428493 Oenothera depressa Greene SYNONYM 6427623 Oenothera villosa subsp. villosa verify: SYNONYM probably invalid
NBNSYS0000014170 Cotoneaster insculptus 3025868 Cotoneaster insculptus Diels SYNONYM 3026162 Cotoneaster franchetii Boiss. verify: SYNONYM probably invalid
NBNSYS0000033983 Cotoneaster sternianus 3026154 Cotoneaster sternianus (Turrill) Boom SYNONYM 3026155 Cotoneaster franchetii var. sternianus Turrill verify: SYNONYM probably invalid
NBNSYS0000034267 Cotoneaster atropurpureus 3025910 Cotoneaster atropurpureus K.E. Flinck & B. Hylmรถ SYNONYM 3025617 Cotoneaster horizontalis Decne verify: SYNONYM probably invalid
NBNSYS0100002637 Cotoneaster vilmorinianus 3025745 Cotoneaster vilmorinianus G. Klotz SYNONYM 3025896 Cotoneaster dielsianus E. Pritz. verify: SYNONYM probably invalid
NHMSYS0000457554 Cotoneaster amoenus 8036392 Cotoneaster amoena E. H Wilson SYNONYM 3026162 Cotoneaster franchetii Boiss. verify: SYNONYM probably invalid
NHMSYS0000457558 Cotoneaster atropurpureus 3025910 Cotoneaster atropurpureus K.E. Flinck & B. Hylmรถ SYNONYM 3025617 Cotoneaster horizontalis Decne verify: SYNONYM probably invalid
NHMSYS0000457594 Cotoneaster hummelii 3025962 Cotoneaster hummelii J. Fryer & B. Hylmรถ SYNONYM 3025565 Cotoneaster acutifolius var. villosulus Rehd. ... verify: SYNONYM probably invalid
NHMSYS0000457598 Cotoneaster induratus 3026187 Cotoneaster induratus J. Fryer & B. Hylmรถ SYNONYM 3026162 Cotoneaster franchetii Boiss. verify: SYNONYM probably invalid
NHMSYS0000457622 Cotoneaster pseudoambiguus 3025789 Cotoneaster pseudoambiguus J. Fryer & B. Hylmรถ SYNONYM 3025858 Cotoneaster ambiguus Rehd. & E.H. Wilson verify: SYNONYM probably invalid
NBNSYS0200002724 Oenothera lipsiensis 3664508 Oenothera lipsiensis Rostanski & Gutte SYNONYM 7322773 Oenothera deflexa Gates verify: SYNONYM unresolved
NHMSYS0000457569 Cotoneaster cinerascens 3026204 Cotoneaster cinerascens (Rehd.) Flinck & Hylmo SYNONYM 3026162 Cotoneaster franchetii Boiss. verify: SYNONYM unresolved
NHMSYS0000461156 Oenothera rubricuspis 3665801 Oenothera rubricuspis Renner ex Rostanski SYNONYM 3188889 Oenothera angustissima Gates verify: SYNONYM unresolved
peterdesmet commented 8 years ago

Pueraria montana is on the T0 list, but Pueraria montana var. lobata (2977647) is not. That works fine for GBIF searches (which automatically searches for children), but an search in recorder will probably miss that variety + synonyms (according to GBIF) linking to it, such as Pueraria lobata.

@timadriaens Should we add Pueraria montana var. lobata to T0?

timadriaens commented 8 years ago

yes please, it's kudzu http://www.gbif.org/species/2977647; official EU list publication mentions "Pueraria montana (Lour.) Merr. var. lobata (Willd.) (Pueraria lobata (Willd.) Ohwi)" look at the notes on taxonomy ib the CABI compendium

peterdesmet commented 8 years ago

Now added to recorder list: 19716c5951dc3dea507774939973ed30e78013e9.

It's hard to solve the 6 none-matches without manually altering names, so I'm closing this issue.