May 2018 - API-users - lists.gbif.org

Asynchronous download service
by Akshat Pant 02 Jun '18

02 Jun '18

Hi all, I'm using the asynchronous download service. The download keeps interrupting. The max I've gotten to is 1.2gb of 68gb. I tried changing my network and computer. Any suggestions? Thanks

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Some geometry searches seem to not be working
by Scott Chamberlain 31 May '18

31 May '18

Hi, Users of rgbif have been reporting problems with geometry parameter in /occurrence route not working sometimes. It does indeed appear to work sometimes, but other times, it appears I think to be using latitude, but ignoring longitude. It's hard to give reproducible examples for command line or so, but here's a query where the longitude values appear to be all over the map, whereas latitude appear to be in the bounds. https://api.gbif.org/v1/occurrence/search?limit=300&offset=0&geometry=POLYG… using hasGeospatialIssue doesn't appear to help so I'm guessing there could be user error on my part or perhaps something going on with geometry WKT usage? Best, Scott

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Re: [API-users] Number of coordinates in "within" predicate
by Reetz, Michael (NLPV) 31 May '18

31 May '18

Dear Jan, thank you very much. I will use coordinates from a generalized version of the national park border for future downloads. This will reduce the length of the string significantly and will still be accurate enough. Best regards Michael Mit freundlichen Grüßen Im Auftrag Michael Reetz ***************************************** Nationalpark-Verwaltung Niedersächsisches Wattenmeer Virchowstr. 1 26382 Wilhelmshaven Tel.: +49 (0) 4421 911 291 Fax.: +49 (0) 441 799 61039 e-mail: michael.reetz(a)nlpv-wattenmeer.niedersachsen.de<mailto:michael.reetz@nlpv-wattenmeer.niedersachsen.de> Web: http://www.<http://www.nationalpark-wattenmeer.niedersachsen.de/>nationalpark-wattenmeer.de Flussgebietsmanagement Übergangs-/Küstengewässer NLWKN * Betriebsstelle Brake / Oldenburg e-mail: michael.reetz(a)nlwkn-ol.niedersachsen.de<mailto:michael.reetz@nlwkn-ol.niedersachsen.de> Web: http://www.nlwkn.de Von: Jan Legind [mailto:jlegind@gbif.org] Gesendet: Mittwoch, 30. Mai 2018 14:23 An: Reetz, Michael (NLPV) <Michael.Reetz(a)nlpv-wattenmeer.niedersachsen.de>; api-users(a)lists.gbif.org Cc: helpdesk <helpdesk(a)gbif.org> Betreff: RE: Number of coordinates in "within" predicate Dear Michael, In case you have not received a reply yet - If you are submitting requests through the GBIF API there is a limit to the size of the string that can be submitted. It would seem that a 1000 coordinate pairs would break the limit. I would recommend downloading data for the general area you are interested in and filter using a GIS application. I have done something similar using a complex polygon in R and I can help you in this regard. Sincerely, Jan K. Legind Data manager, GBIF From: API-users [mailto:api-users-bounces@lists.gbif.org] On Behalf Of Reetz, Michael (NLPV) Sent: 18 May 2018 09:43 To: api-users(a)lists.gbif.org<mailto:api-users@lists.gbif.org> Subject: [API-users] Number of coordinates in "within" predicate Dear all, I'm working on a procedure for data download for the "Lower Saxon Wadden Sea" national park using the API. It works for a smaller region defined by a polygon with 183 coordinate pairs (vertices). For a larger region (more than 1000 coordinate pairs), I receive status 400 and the following response text: Instantiation of [simple type, class org.gbif.api.model.occurrence.predicate.WithinPredicate] value failed: null (through reference chain: org.gbif.api.model.occurrence.predicate.WithinPredicate["geometry"]) My question is where the limit for the number of coordinate pairs is. Thanks for help. Kind regards Michael Reetz ***************************************** Nationalpark-Verwaltung Niedersächsisches Wattenmeer Virchowstr. 1 26382 Wilhelmshaven Tel.: +49 (0) 4421 911 291 Fax.: +49 (0) 441 799 61039 e-mail: michael.reetz(a)nlpv-wattenmeer.niedersachsen.de<mailto:michael.reetz@nlpv-wattenmeer.niedersachsen.de> Web: http://www.<http://www.nationalpark-wattenmeer.niedersachsen.de/>nationalpark-wattenmeer.de Flussgebietsmanagement Übergangs-/Küstengewässer NLWKN * Betriebsstelle Brake / Oldenburg e-mail: michael.reetz(a)nlwkn-ol.niedersachsen.de<mailto:michael.reetz@nlwkn-ol.niedersachsen.de> Web: http://www.nlwkn.de

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Number of coordinates in "within" predicate
by Reetz, Michael (NLPV) 30 May '18

30 May '18

Dear all, I'm working on a procedure for data download for the "Lower Saxon Wadden Sea" national park using the API. It works for a smaller region defined by a polygon with 183 coordinate pairs (vertices). For a larger region (more than 1000 coordinate pairs), I receive status 400 and the following response text: Instantiation of [simple type, class org.gbif.api.model.occurrence.predicate.WithinPredicate] value failed: null (through reference chain: org.gbif.api.model.occurrence.predicate.WithinPredicate["geometry"]) My question is where the limit for the number of coordinate pairs is. Thanks for help. Kind regards Michael Reetz ***************************************** Nationalpark-Verwaltung Niedersächsisches Wattenmeer Virchowstr. 1 26382 Wilhelmshaven Tel.: +49 (0) 4421 911 291 Fax.: +49 (0) 441 799 61039 e-mail: michael.reetz(a)nlpv-wattenmeer.niedersachsen.de<mailto:michael.reetz@nlpv-wattenmeer.niedersachsen.de> Web: http://www.<http://www.nationalpark-wattenmeer.niedersachsen.de/>nationalpark-wattenmeer.de Flussgebietsmanagement Übergangs-/Küstengewässer NLWKN * Betriebsstelle Brake / Oldenburg e-mail: michael.reetz(a)nlwkn-ol.niedersachsen.de<mailto:michael.reetz@nlwkn-ol.niedersachsen.de> Web: http://www.nlwkn.de

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Get specific occurrences
by Akshat Pant 18 May '18

18 May '18

Hi all, I'm trying to get all the years of occurrence for a specific organism. I tried pagination and with the limit and offset parameters. For example: http://api.gbif.org/v1/occurrence/search?offset=1&limit=30 But I noticed that each successive page has duplicate results. For example: for the scientific name: Aaptos aaptos, I tried limit= 30 and increased the offset parameter as- offset=0&limit=30 and offset=1&limit=30 The two queries have 29 common results. Is this supposed to happen or am I doing something wrong? Thanks, -- Akshat Pant *Graduate Student | University of Maryland* Master of Information Management

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