[API-users] Remove/filter by data from botanical gardens?

Tim Robertson trobertson at gbif.org
Tue Oct 7 23:30:28 CEST 2014


Hi Scott

Occurrence record fields are elastic - we support the full DwC, but can only render from GBIF.org what is shared by the data publisher.

So that field will only appear on records where it is present - here is an example of a single record:
  http://api.gbif.org/v1/occurrence/675943831

That record above is the interpreted view of the verbatim content we observed from the source:
  http://api.gbif.org/v1/occurrence/675943831/verbatim

It is also returned in a search (same dataset as record above):
  http://api.gbif.org/v1/occurrence/search?datasetKey=b6015b60-6f96-43a9-88e5-2f41854e8f07

I hope this helps,
Tim




On 07 Oct 2014, at 20:48, Scott Chamberlain <scott at ropensci.org> wrote:

> Hmmm...I don't see establishmentMeans anywhere in the returned data from the /occurrence . I do see documentation on it, endpoint https://code.google.com/p/darwincore/wiki/Occurrence#establishmentMeans, but is it included in data output anywhere? Maybe called something else?
> 
> S
> 
> On Tue, Oct 7, 2014 at 10:42 AM, Scott Chamberlain <scott at ropensci.org> wrote:
> Alex, 
> 
> Thanks, that's a good idea. I was thinking that there are a finite number of botanical gardens, so I could simply collect coordinates for each of them, and a reasonable bounding box around each one perhaps. 
> 
> Scott
> 
> On Tue, Oct 7, 2014 at 10:03 AM, Alex Thompson <godfoder at acis.ufl.edu> wrote:
> Also not something that can be done via the API, but botanical gardens
> will also tend to be fairly large locality outliers (large numbers of
> extremely tightly clustered points from relatively diverse taxa). Often,
> I've found, many gardens are all geo-referenced to a single reference
> locality, so you don't even need to do a bounding box filter, you can
> just filter out specific points.
> 
> - Alex
> 
> On 10/07/2014 10:47 AM, Tim Robertson wrote:
> > Hi Scott,
> >
> > There is actually no easy way of doing this.  Filtering out BasisOfRecord=LivingSpecimen would get you some of the way there, and looking into the establishmentMeans a step further, but the some of the data just don’t have fields to filter them out.
> >
> > Cheers,
> > Tim
> >
> >
> > On 07 Oct 2014, at 03:00, Scott Chamberlain <myrmecocystus at gmail.com> wrote:
> >
> >> Hello,
> >>
> >> Someone brought up recently whether or not they could exclude observations from botanical gardens in GBIF occurrence searches. I think they meant just occurrences from within actual gardens, not observations from more natural areas in a database provided by a botanical garden.
> >>
> >> Is something like this already flagged as an issue in the occurrence issue enum? I didn't see it myself. I guess one could find the data providers that are botanical gardens and exclude those if they are in the search results.
> >>
> >> Thanks for any guidance.
> >>
> >> Cheers, Scott Chamberlain
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