- API-users - lists.gbif.org

Asynchronous download service
by Akshat Pant 21 Apr '18

21 Apr '18

Hi, I am trying to use the asynchronous download service. I used the following curl query: curl -i --user akshat26:**** -H "Content-Type: application/json" -X POST -d @query.json 'https://api.gbif-uat.org/v1/occurrence/download/request' But the download link doesn't seem to be working. HTTP/1.1 201 Created Date: Fri, 20 Apr 2018 23:33:25 GMT Content-Type: application/json Location: http://api.gbif-uat.org/occurrence/download/request/0000049-180416113528795 Access-Control-Allow-Origin: * Access-Control-Allow-Methods: HEAD, GET, POST, DELETE, PUT Connection: close Server: Jetty(9.2.z-SNAPSHOT) curl -Ss http://api.gbif.org/v1/occurrence/download/0000049-180416113528795 I hope someone can help -- Akshat Pant *Graduate Student | University of Maryland* Master of Information Management

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(no subject)
by Scott Chamberlain 10 Apr '18

10 Apr '18

Hi all, Dimiano (in CC) has identified a potential problem with the species API. see https://github.com/ropensci/rgbif/issues/299 In particular the /species/search route. The gist is that we think there's duplicates returned when paging through that route for a given search. This comment https://github.com/ropensci/rgbif/issues/299#issuecomment-378775164 has curl based examples so you can replicate. Is it a possible GBIF problem, or are we doing something wrong? Thanks, Scott

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Flight period charts ?
by Adriaan van Os 05 Apr '18

05 Apr '18

How do I create flight period charts for a specific (butterfly) species using the api ? An example of a flight period chart has been added (taken from <http://www.microvlinders.nl/soorten/species.php?speciescode=430050&p=3>. Regards, Adriaan van Os

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download url for GBIF Backbone Taxonomy?
by Stoner, Dan 16 Mar '18

16 Mar '18

Regarding the archive available for: https://www.gbif.org/dataset/d7dddbf4-2cf0-4f39-9b2a-bb099caae36c I attempted to download the archive using a command-line tool but cannot because: We’re sorry, but GBIF doesn’t work properly without JavaScript enabled. I started the download from my browser and the expected download time keeps bouncing between 8 hours and 12 hours. Two questions: 1. Is there a location on the Internet where I can download that file in a reasonable timeframe? 2. Is there a url that will function properly to download the file without requiring javascript? Is there any interest in developing mirrors or a CDN to host some of these things within the community? Thanks, Dan Stoner iDigBio / ACIS Laboratory University of Florida

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More information on "shortname"?
by Scott Chamberlain 06 Mar '18

06 Mar '18

Hi, Is there any further information on what a "shortname" - used in the API route /species/root/{uuid|shortname} described at https://www.gbif.org/developer/species I assume "uuid|shortname" is uuid OR a shortname. So perhaps shortname is a short name for a dataset? Thanks, Scott

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Change to GBIF download retention period
by Matthew Blissett 13 Feb '18

13 Feb '18

Dear GBIF users, In recent months, usage of the GBIF.org website and APIs has increased significantly. Many more users are downloading data from GBIF.org, and it is no longer practical for us to keep all download files indefinitely. Starting from yesterday [1], new download files made through GBIF.org will be marked for deletion six months in the future. Users can request that their download files be kept for a longer period through www.GBIF.org [2]. If a download has been cited in research, we will keep it for as long as possible – notify us of this through the website. DOIs are still generated, and the download metadata (the filter used, datasets involved and so on) will be kept forever. Only the ZIP file itself will be deleted. Email reminders will be sent before download files are deleted. For the moment, almost all downloads from before 2018-02-12 will be kept. A few users have multiple very large downloads, these account for the majority of the storage space used, and in many cases appear to be made in error. I will send individual emails to these users asking if they still need to retain these downloads. Thank you, Matthew Blissett [1] Starting from 2018-02-12 14:05 UTC, to be precise. [2] To request a download file be kept for longer, go to the download page, perhaps via https://www.gbif.org/user/download, and click "Postpone Deletion". Only downloads with a future deletion date will show the option to postpone.

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/species route question/possible problem
by Scott Chamberlain 09 Feb '18

09 Feb '18

Hi folks, Seems like the `/species` route is possibly misbehaving in certain cases. A user of rgbif reports https://github.com/ropensci/rgbif/issues/287 unexpected results. The same calls but with curl: curl ' https://api.gbif.org/v1/species?datasetKey=73605f3a-af85-4ade-bbc5-522bfb90…' | jq .results\[].datasetKey | wc -l 10 curl ' https://api.gbif.org/v1/species?datasetKey=73605f3a-af85-4ade-bbc5-522bfb90…' | jq .results\[].datasetKey | wc -l 10 curl ' https://api.gbif.org/v1/species?datasetKey=d7c60346-44b6-400d-ba27-8d3fbeff…' | jq .results\[].datasetKey | wc -l 7 We'd expect the first curl request to return 17 results given the results of the datasetKey's individually. Not sure what is going on there. This route does appear to accept multiple instances of the same parameter, but not sure why the top curl call there doesn't return 17 results? Best, Scott

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get specific occurrences
by Daniel Noesgaard 16 Jan '18

16 Jan '18

Hey, Is there a way of downloading specific occurrences based on ID/key? E.g. for http://api.gbif.org/v1/occurrence/1038345215 tried this, but it doesn’t seem to work: "predicate": { "type":"equals", "key":"OCCURRENCE_ID", "value":"1038345215" } Thanks, Daniel

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Getting all results for a given search filter
by Akshat Pant 14 Jan '18

14 Jan '18

Hi all, I'm trying to get all the years of occurrence for a specific organism. But I only get 20 results for each organism that I search. How do I get all the results ? Thanks, Akshat

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Using the asynchronous download service
by Akshat Pant 02 Jan '18

02 Jan '18

Hi all, I'm trying to retrieve the latitude and longitude for some specific organisms. I'm trying to use the synchronous download service. I used the 'equals' predicate to filter by the hasCoordinate value. But the curl query just returns a warning saying that it returns an empty post. I hope that someone can help. Thanks, Akshat

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