[Taxacom] recursive SQL database for taxonomy available?

Erik Rijkers er at xs4all.nl
Fri Jan 17 11:10:25 CST 2014


On Fri, January 17, 2014 17:08, Markus Döring wrote:
> Hi Kim & Erik,
>
> I've dumped the GBIF backbone from our postgres 9.3 server and placed it here (427MB):
> https://dl.dropboxusercontent.com/u/457027/nub.sql.zip

The dump took just over 4 minutes to load (postgres 9.4devel).

Thank you very much Markus, this is much fun and really useful.

Erik Rijkers
Utrecht, Netherlands


> The tables should be fairly straight forward with taxa being in "name_usage" and names in "name".
> A simple join to get the core properties for a taxon would be this sql:
>
> 	select u.id, parent_fk,n.scientific_name, rank, status, p.citation as publlishedIn from name_usage u join name n on
> name_fk=n.id left join citation p on name_published_in_fk=p.id order by rank limit 100;
>
> The backbone is the current live one with the higher classification coming from the Catalog of Life.
> Quick facts:
>
>   taxa incl synonyms:  4.416.347
>   synonyms:  1.143.026
>   names: 4.410.899
>   accepted taxa by rank:
> 	KINGDOM: 9
> 	PHYLUM: 111
> 	CLASS: 272
> 	ORDER: 1183
> 	SUPERFAMILY: 356
> 	FAMILY: 20760
> 	GENUS: 390790
> 	SPECIES: 2497114
> 	SUBSPECIES: 171473
> 	VARIETY: 149011
> 	SUBVARIETY: 1070
> 	FORM: 40473
>
>
> best,
> Markus
>
>
> --
> Markus Döring
> Software Developer
> Global Biodiversity Information Facility (GBIF)
> mdoering at gbif.org
> http://www.gbif.org






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