[API-users] Changes in GBIF.org and API

[Mauro Cavalcanti]

Hi,

Using Python anf the pygbif library, you can do something like this:

from pygbif import species, occurrences

taxon_name = "Myrtales" # an order level taxon
taxon_rank = "order"

key = species.name_backbone(name=taxon_name, rank=taxon_rank)["usageKey"]
n = occurrences.count(taxonKey=key, isGeoreferenced=True)
print n, " record(s) for ", taxon_name

This script allows to retrieve the number of records at a given taxonomic
level; it can be modified to retrieve the records themselves (or selected
parts of them).

Hope this helps.

Salud!


2016-09-01 10:19 GMT-03:00 Eduardo Dalcin <edalcin at jbrj.org>:

> Hi Tim, Thanks for the prompt reply. Yes, I'm aware of the KEY parameter.
> My comment is that at the filter, for humans that are not aware of those
> "obscure codes", still no way to select upper taxonomic ranks but species,
> through scientific name. Am I right?
>
> Eduardo
>
>
> --------------------------------
> *Eduardo Dalcin <http://eduardo.dalc.in>*
> Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ
> Diretoria de Pesquisas
> e-mail: edalcin at jbrj.org
> Trabalho / Work: +55 21 3204 2116
> WhatsApp / Telegram: +55 21 98393 3344
> Portal de Dados do JBRJ/DIPEQ <http://dados.jbrj.gov.br/>
> --------------------------------
>
> On Thu, Sep 1, 2016 at 10:12 AM, Tim Robertson <trobertson at gbif.org>
> wrote:
>
>> Hi Eduardo,
>>
>> I hope you are well.  I’m not sure I understand your comment I’m afraid.
>> Taxonomic filters have been working in GBIF since 2007 and they can be
>> combined with any other filters.  They are the most used search filters,
>> which all species pages link to.
>>
>> Plants:  http://www.gbif.org/occurrence/search?TAXON_KEY=6  or
>> http://api.gbif.org/v1/occurrence/search?TAXON_KEY=6
>> Animals: http://www.gbif.org/occurrence/search?TAXON_KEY=1  or
>> http://api.gbif.org/v1/occurrence/search?TAXON_KEY=1
>>
>> I presume you mean something else though - can you please explain and
>> I’ll try and help?
>>
>> Thanks,
>> Tim
>>
>>
>>
>> From: Eduardo Dalcin <edalcin at jbrj.org>
>> Date: Thursday 1 September 2016 at 14:55
>> To: Tim Robertson <trobertson at gbif.org>
>> Cc: "api-users at lists.gbif.org" <api-users at lists.gbif.org>
>> Subject: Re: [API-users] Changes in GBIF.org and API
>>
>> Congrats folks! Great job!
>>
>> Still no way to separate plants of animals, or I missing something?
>>
>> Cheers
>>
>> Eduardo
>>
>>
>> --------------------------------
>> *Eduardo Dalcin <http://eduardo.dalc.in>*
>> Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ
>> Diretoria de Pesquisas
>> e-mail: edalcin at jbrj.org
>> Trabalho / Work: +55 21 3204 2116
>> WhatsApp / Telegram: +55 21 98393 3344
>> Portal de Dados do JBRJ/DIPEQ <http://dados.jbrj.gov.br/>
>> --------------------------------
>>
>> On Thu, Sep 1, 2016 at 8:55 AM, Tim Robertson <trobertson at gbif.org>
>> wrote:
>>
>>> Hi folks,
>>>
>>> I am very happy to let you know that a new release of GBIF.org went
>>> online at lunchtime today with the following enhancements:
>>>
>>> *Occurrence search (http://www.gbif.org/occurrence/search
>>> <http://www.gbif.org/occurrence/search>):*
>>>
>>>    - New locality based filters:
>>>       - locality, province/state and water body
>>>       - These are not interpreted terms, but allow search based on what
>>>       publishers state
>>>       - http://www.gbif.org/occurrence/search?STATE_PROVINCE=California
>>>
>>>       - http://www.gbif.org/occurrence/search?WATER_BODY=AMAZONAS+BA
>>>       SIN%2C+RIO+JURUA
>>>    - A new organismID filter
>>>       - http://www.gbif.org/occurrence/search?ORGANISM_ID=100
>>>    - Publishing protocol filter
>>>       - http://www.gbif.org/occurrence/search?PROTOCOL=TAPIR
>>>    - License filter and facet:
>>>       - http://www.gbif.org/occurrence/search?license=CC_BY_4_0
>>>    - The occurrence API supports all the filters mentioned above with
>>>    the addition of also allowing search by publishing organisation
>>>
>>> *Occurrence downloads*:
>>>
>>>    - The rights.txt file: has been changed to list all the licenses of
>>>    datasets included in that download.
>>>    - DwC-A based downloads and the Datacite metada (DOIs) use the most
>>>    restrictive license of the datasets included in the download defaulting to
>>>    CC-BY.
>>>    - The CSV downloads contain a new column ‘*License*’.
>>>
>>> The *Dataset search page* now supports faceted navigation by license:
>>> http://www.gbif.org/dataset/search?license=CC_BY_4_0
>>>
>>> In the release, we have temporarily broken the “*repatriation*” filter
>>> which is being re-enabled now, and will be online again tomorrow.  Sorry
>>> about this partial outage of that search term.
>>>
>>> Many thanks,
>>> Tim
>>>
>>>
>>>
>>> _______________________________________________
>>> API-users mailing list
>>> API-users at lists.gbif.org
>>> http://lists.gbif.org/mailman/listinfo/api-users
>>>
>>>
>>
>
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>


-- 
Dr. Mauro J. Cavalcanti
E-mail: maurobio at gmail.com
Web: http://sites.google.com/site/maurobio
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