Changes in GBIF.org and API
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): * 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+BASIN%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
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@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@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+BASIN%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@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
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@jbrj.org<mailto:edalcin@jbrj.org>> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> Cc: "api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>" <api-users@lists.gbif.org<mailto:api-users@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@jbrj.org<mailto:edalcin@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@gbif.org<mailto:trobertson@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): * 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+BASIN%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@lists.gbif.org<mailto:API-users@lists.gbif.org> http://lists.gbif.org/mailman/listinfo/api-users
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@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@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@jbrj.org> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@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@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@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+ BASIN%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@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
Thanks Eduardo. No, you can type “Plantae” or any higher taxa in the scientific name filter and it will assist with autocompletion. I hope this helps, Tim From: Eduardo Dalcin <edalcin@jbrj.org<mailto:edalcin@jbrj.org>> Date: Thursday 1 September 2016 at 15:19 To: Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> Cc: "api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>" <api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>> Subject: Re: [API-users] Changes in GBIF.org and API 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@jbrj.org<mailto:edalcin@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@gbif.org<mailto:trobertson@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@jbrj.org<mailto:edalcin@jbrj.org>> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> Cc: "api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>" <api-users@lists.gbif.org<mailto:api-users@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@jbrj.org<mailto:edalcin@jbrj.org> Trabalho / Work: +55 21 3204 2116<tel:%2B55%2021%203204%202116> WhatsApp / Telegram: +55 21 98393 3344<tel:%2B55%2021%2098393%203344> Portal de Dados do JBRJ/DIPEQ<http://dados.jbrj.gov.br/> -------------------------------- On Thu, Sep 1, 2016 at 8:55 AM, Tim Robertson <trobertson@gbif.org<mailto:trobertson@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): * 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+BASIN%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@lists.gbif.org<mailto:API-users@lists.gbif.org> http://lists.gbif.org/mailman/listinfo/api-users
That's it! Thanks! I don't get this: [image: Inline image 1] -------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:23 AM, Tim Robertson <trobertson@gbif.org> wrote:
Thanks Eduardo.
No, you can type “Plantae” or any higher taxa in the scientific name filter and it will assist with autocompletion.
I hope this helps, Tim
From: Eduardo Dalcin <edalcin@jbrj.org> Date: Thursday 1 September 2016 at 15:19
To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@lists.gbif.org> Subject: Re: [API-users] Changes in GBIF.org and API
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@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@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@jbrj.org> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@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@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@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@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
Oops: http://www.gbif.org/occurrence/search?taxon_key=Plantae&basis_of_record=PRES... -------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:27 AM, Eduardo Dalcin <edalcin@jbrj.org> wrote:
That's it! Thanks!
I don't get this: [image: Inline image 1]
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:23 AM, Tim Robertson <trobertson@gbif.org> wrote:
Thanks Eduardo.
No, you can type “Plantae” or any higher taxa in the scientific name filter and it will assist with autocompletion.
I hope this helps, Tim
From: Eduardo Dalcin <edalcin@jbrj.org> Date: Thursday 1 September 2016 at 15:19
To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@lists.gbif.org> Subject: Re: [API-users] Changes in GBIF.org and API
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@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@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@jbrj.org> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@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@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@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@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
Eduardo, please try with parameters in uppercase http://www.gbif.org/occurrence/search?TAXON_KEY=Plantae&BASIS_OF_RECORD=PRES... From: API-users <api-users-bounces@lists.gbif.org<mailto:api-users-bounces@lists.gbif.org>> on behalf of Eduardo Dalcin <edalcin@jbrj.org<mailto:edalcin@jbrj.org>> Date: Thursday 1 September 2016 at 15:28 To: Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> Cc: "api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>" <api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>>, Morten Hoefft <mhoefft@gbif.org<mailto:mhoefft@gbif.org>> Subject: Re: [API-users] Changes in GBIF.org and API Oops: http://www.gbif.org/occurrence/search?taxon_key=Plantae&basis_of_record=PRES... -------------------------------- Eduardo Dalcin<http://eduardo.dalc.in> Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@jbrj.org<mailto:edalcin@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 10:27 AM, Eduardo Dalcin <edalcin@jbrj.org<mailto:edalcin@jbrj.org>> wrote: That's it! Thanks! I don't get this: [Inline image 1] -------------------------------- Eduardo Dalcin<http://eduardo.dalc.in> Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@jbrj.org<mailto:edalcin@jbrj.org> Trabalho / Work: +55 21 3204 2116<tel:%2B55%2021%203204%202116> WhatsApp / Telegram: +55 21 98393 3344<tel:%2B55%2021%2098393%203344> Portal de Dados do JBRJ/DIPEQ<http://dados.jbrj.gov.br/> -------------------------------- On Thu, Sep 1, 2016 at 10:23 AM, Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> wrote: Thanks Eduardo. No, you can type “Plantae” or any higher taxa in the scientific name filter and it will assist with autocompletion. I hope this helps, Tim From: Eduardo Dalcin <edalcin@jbrj.org<mailto:edalcin@jbrj.org>> Date: Thursday 1 September 2016 at 15:19 To: Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> Cc: "api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>" <api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>> Subject: Re: [API-users] Changes in GBIF.org and API 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@jbrj.org<mailto:edalcin@jbrj.org> Trabalho / Work: +55 21 3204 2116<tel:%2B55%2021%203204%202116> WhatsApp / Telegram: +55 21 98393 3344<tel:%2B55%2021%2098393%203344> Portal de Dados do JBRJ/DIPEQ<http://dados.jbrj.gov.br/> -------------------------------- On Thu, Sep 1, 2016 at 10:12 AM, Tim Robertson <trobertson@gbif.org<mailto:trobertson@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@jbrj.org<mailto:edalcin@jbrj.org>> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> Cc: "api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>" <api-users@lists.gbif.org<mailto:api-users@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@jbrj.org<mailto:edalcin@jbrj.org> Trabalho / Work: +55 21 3204 2116<tel:%2B55%2021%203204%202116> WhatsApp / Telegram: +55 21 98393 3344<tel:%2B55%2021%2098393%203344> Portal de Dados do JBRJ/DIPEQ<http://dados.jbrj.gov.br/> -------------------------------- On Thu, Sep 1, 2016 at 8:55 AM, Tim Robertson <trobertson@gbif.org<mailto:trobertson@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): * 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+BASIN%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@lists.gbif.org<mailto:API-users@lists.gbif.org> http://lists.gbif.org/mailman/listinfo/api-users
Thanks Federico Eduardo -------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 11:08 AM, Federico Mendez <fmendez@gbif.org> wrote:
Eduardo, please try with parameters in uppercase http://www.gbif.org/ occurrence/search?TAXON_KEY=Plantae&BASIS_OF_RECORD=PRESERVED_SPECIMEN
From: API-users <api-users-bounces@lists.gbif.org> on behalf of Eduardo Dalcin <edalcin@jbrj.org> Date: Thursday 1 September 2016 at 15:28 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@lists.gbif.org>, Morten Hoefft < mhoefft@gbif.org>
Subject: Re: [API-users] Changes in GBIF.org and API
Oops: http://www.gbif.org/occurrence/search?taxon_key= Plantae&basis_of_record=PRESERVED_SPECIMEN
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:27 AM, Eduardo Dalcin <edalcin@jbrj.org> wrote:
That's it! Thanks!
I don't get this: [image: Inline image 1]
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:23 AM, Tim Robertson <trobertson@gbif.org> wrote:
Thanks Eduardo.
No, you can type “Plantae” or any higher taxa in the scientific name filter and it will assist with autocompletion.
I hope this helps, Tim
From: Eduardo Dalcin <edalcin@jbrj.org> Date: Thursday 1 September 2016 at 15:19
To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@lists.gbif.org> Subject: Re: [API-users] Changes in GBIF.org and API
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@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@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@jbrj.org> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@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@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@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=Califor nia - 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@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
Oops: http://www.gbif.org/occurrence/search?taxon_key=Plantae&basis_of_record=PRES... BR selected from Interface. -------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 11:08 AM, Federico Mendez <fmendez@gbif.org> wrote:
Eduardo, please try with parameters in uppercase http://www.gbif.org/ occurrence/search?TAXON_KEY=Plantae&BASIS_OF_RECORD=PRESERVED_SPECIMEN
From: API-users <api-users-bounces@lists.gbif.org> on behalf of Eduardo Dalcin <edalcin@jbrj.org> Date: Thursday 1 September 2016 at 15:28 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@lists.gbif.org>, Morten Hoefft < mhoefft@gbif.org>
Subject: Re: [API-users] Changes in GBIF.org and API
Oops: http://www.gbif.org/occurrence/search?taxon_key= Plantae&basis_of_record=PRESERVED_SPECIMEN
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:27 AM, Eduardo Dalcin <edalcin@jbrj.org> wrote:
That's it! Thanks!
I don't get this: [image: Inline image 1]
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:23 AM, Tim Robertson <trobertson@gbif.org> wrote:
Thanks Eduardo.
No, you can type “Plantae” or any higher taxa in the scientific name filter and it will assist with autocompletion.
I hope this helps, Tim
From: Eduardo Dalcin <edalcin@jbrj.org> Date: Thursday 1 September 2016 at 15:19
To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@lists.gbif.org> Subject: Re: [API-users] Changes in GBIF.org and API
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@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@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@jbrj.org> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@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@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@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=Califor nia - 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@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
Here is how to achieve this using Python/pygbif (what else? ;-)) from pprint import pprint from pygbif import species, occurrences taxon_name = "Plantae" # a kingdom level taxon taxon_rank = "kingdom" key = species.name_backbone(name=taxon_name, rank=taxon_rank)["usageKey"] n = occurrences.count(taxonKey=key, isGeoreferenced=True) print format(n, ','), " record(s) for ", taxon_name max = 5 # maximum number of records to retrieve results = occurrences.search(taxonKey=key, basisOfRecord="PRESERVED_SPECIMEN", hasCoordinate=True, limit=max) for x in results["results"]: print pprint(x) # results are returned in JSON format Hope it helps. Salud! 2016-09-01 10:28 GMT-03:00 Eduardo Dalcin <edalcin@jbrj.org>:
Oops: http://www.gbif.org/occurrence/search?taxon_key= Plantae&basis_of_record=PRESERVED_SPECIMEN
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:27 AM, Eduardo Dalcin <edalcin@jbrj.org> wrote:
That's it! Thanks!
I don't get this: [image: Inline image 1]
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:23 AM, Tim Robertson <trobertson@gbif.org> wrote:
Thanks Eduardo.
No, you can type “Plantae” or any higher taxa in the scientific name filter and it will assist with autocompletion.
I hope this helps, Tim
From: Eduardo Dalcin <edalcin@jbrj.org> Date: Thursday 1 September 2016 at 15:19
To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@lists.gbif.org> Subject: Re: [API-users] Changes in GBIF.org and API
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@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@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@jbrj.org> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@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@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@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=Califor nia - 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@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
_______________________________________________ API-users mailing list API-users@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
-- Dr. Mauro J. Cavalcanti E-mail: maurobio@gmail.com Web: http://sites.google.com/site/maurobio
Thanks Mauro. The point is that I want to use the web interface provided by GBIF. Best Eduardo -------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 11:16 AM, Mauro Cavalcanti <maurobio@gmail.com> wrote:
Here is how to achieve this using Python/pygbif (what else? ;-))
from pprint import pprint from pygbif import species, occurrences
taxon_name = "Plantae" # a kingdom level taxon taxon_rank = "kingdom"
key = species.name_backbone(name=taxon_name, rank=taxon_rank)["usageKey"] n = occurrences.count(taxonKey=key, isGeoreferenced=True) print format(n, ','), " record(s) for ", taxon_name
max = 5 # maximum number of records to retrieve results = occurrences.search(taxonKey=key, basisOfRecord="PRESERVED_SPECIMEN", hasCoordinate=True, limit=max) for x in results["results"]: print pprint(x) # results are returned in JSON format
Hope it helps.
Salud!
2016-09-01 10:28 GMT-03:00 Eduardo Dalcin <edalcin@jbrj.org>:
Oops: http://www.gbif.org/occurrence/search?taxon_key=Planta e&basis_of_record=PRESERVED_SPECIMEN
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:27 AM, Eduardo Dalcin <edalcin@jbrj.org> wrote:
That's it! Thanks!
I don't get this: [image: Inline image 1]
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:23 AM, Tim Robertson <trobertson@gbif.org> wrote:
Thanks Eduardo.
No, you can type “Plantae” or any higher taxa in the scientific name filter and it will assist with autocompletion.
I hope this helps, Tim
From: Eduardo Dalcin <edalcin@jbrj.org> Date: Thursday 1 September 2016 at 15:19
To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@lists.gbif.org> Subject: Re: [API-users] Changes in GBIF.org and API
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@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@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@jbrj.org> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@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@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@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=Califor nia - 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@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
_______________________________________________ API-users mailing list API-users@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
-- Dr. Mauro J. Cavalcanti E-mail: maurobio@gmail.com Web: http://sites.google.com/site/maurobio
Dalcin, As you can see, the web interface does not work the way you expect. Salud! 2016-09-01 11:20 GMT-03:00 Eduardo Dalcin <edalcin@jbrj.org>:
Thanks Mauro.
The point is that I want to use the web interface provided by GBIF.
Best
Eduardo
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 11:16 AM, Mauro Cavalcanti <maurobio@gmail.com> wrote:
Here is how to achieve this using Python/pygbif (what else? ;-))
from pprint import pprint from pygbif import species, occurrences
taxon_name = "Plantae" # a kingdom level taxon taxon_rank = "kingdom"
key = species.name_backbone(name=taxon_name, rank=taxon_rank)["usageKey"] n = occurrences.count(taxonKey=key, isGeoreferenced=True) print format(n, ','), " record(s) for ", taxon_name
max = 5 # maximum number of records to retrieve results = occurrences.search(taxonKey=key, basisOfRecord="PRESERVED_SPECIMEN", hasCoordinate=True, limit=max) for x in results["results"]: print pprint(x) # results are returned in JSON format
Hope it helps.
Salud!
2016-09-01 10:28 GMT-03:00 Eduardo Dalcin <edalcin@jbrj.org>:
Oops: http://www.gbif.org/occurrence/search?taxon_key=Planta e&basis_of_record=PRESERVED_SPECIMEN
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:27 AM, Eduardo Dalcin <edalcin@jbrj.org> wrote:
That's it! Thanks!
I don't get this: [image: Inline image 1]
-------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:23 AM, Tim Robertson <trobertson@gbif.org> wrote:
Thanks Eduardo.
No, you can type “Plantae” or any higher taxa in the scientific name filter and it will assist with autocompletion.
I hope this helps, Tim
From: Eduardo Dalcin <edalcin@jbrj.org> Date: Thursday 1 September 2016 at 15:19
To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@lists.gbif.org> Subject: Re: [API-users] Changes in GBIF.org and API
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@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@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@jbrj.org> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@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@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@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=Califor > nia > - 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@lists.gbif.org > http://lists.gbif.org/mailman/listinfo/api-users > >
_______________________________________________ API-users mailing list API-users@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
-- Dr. Mauro J. Cavalcanti E-mail: maurobio@gmail.com Web: http://sites.google.com/site/maurobio
-- Dr. Mauro J. Cavalcanti E-mail: maurobio@gmail.com Web: http://sites.google.com/site/maurobio
Hi Eduardo Thanks – yes, that is a nuisance. That happens when you submit the filter before the autocomplete has finished. We’re working on a big revision of this page and that won’t happen in the new version. Thanks, Tim From: Eduardo Dalcin <edalcin@jbrj.org<mailto:edalcin@jbrj.org>> Date: Thursday 1 September 2016 at 15:27 To: Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> Cc: "api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>" <api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>>, Morten Hoefft <mhoefft@gbif.org<mailto:mhoefft@gbif.org>> Subject: Re: [API-users] Changes in GBIF.org and API That's it! Thanks! I don't get this: [Inline image 1] -------------------------------- Eduardo Dalcin<http://eduardo.dalc.in> Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@jbrj.org<mailto:edalcin@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 10:23 AM, Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> wrote: Thanks Eduardo. No, you can type “Plantae” or any higher taxa in the scientific name filter and it will assist with autocompletion. I hope this helps, Tim From: Eduardo Dalcin <edalcin@jbrj.org<mailto:edalcin@jbrj.org>> Date: Thursday 1 September 2016 at 15:19 To: Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> Cc: "api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>" <api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>> Subject: Re: [API-users] Changes in GBIF.org and API 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@jbrj.org<mailto:edalcin@jbrj.org> Trabalho / Work: +55 21 3204 2116<tel:%2B55%2021%203204%202116> WhatsApp / Telegram: +55 21 98393 3344<tel:%2B55%2021%2098393%203344> Portal de Dados do JBRJ/DIPEQ<http://dados.jbrj.gov.br/> -------------------------------- On Thu, Sep 1, 2016 at 10:12 AM, Tim Robertson <trobertson@gbif.org<mailto:trobertson@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@jbrj.org<mailto:edalcin@jbrj.org>> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org<mailto:trobertson@gbif.org>> Cc: "api-users@lists.gbif.org<mailto:api-users@lists.gbif.org>" <api-users@lists.gbif.org<mailto:api-users@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@jbrj.org<mailto:edalcin@jbrj.org> Trabalho / Work: +55 21 3204 2116<tel:%2B55%2021%203204%202116> WhatsApp / Telegram: +55 21 98393 3344<tel:%2B55%2021%2098393%203344> Portal de Dados do JBRJ/DIPEQ<http://dados.jbrj.gov.br/> -------------------------------- On Thu, Sep 1, 2016 at 8:55 AM, Tim Robertson <trobertson@gbif.org<mailto:trobertson@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): * 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+BASIN%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@lists.gbif.org<mailto:API-users@lists.gbif.org> http://lists.gbif.org/mailman/listinfo/api-users
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@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@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@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@jbrj.org> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@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@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@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@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
_______________________________________________ API-users mailing list API-users@lists.gbif.org http://lists.gbif.org/mailman/listinfo/api-users
-- Dr. Mauro J. Cavalcanti E-mail: maurobio@gmail.com Web: http://sites.google.com/site/maurobio
Thanks Mauro and Tim! Cheers Eduardo -------------------------------- *Eduardo Dalcin <http://eduardo.dalc.in>* Instituto de Pesquisas Jardim Botânico do Rio de Janeiro - JBRJ Diretoria de Pesquisas e-mail: edalcin@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 10:32 AM, Mauro Cavalcanti <maurobio@gmail.com> wrote:
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@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@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@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@jbrj.org> Date: Thursday 1 September 2016 at 14:55 To: Tim Robertson <trobertson@gbif.org> Cc: "api-users@lists.gbif.org" <api-users@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@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@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
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participants (4)
-
Eduardo Dalcin -
Federico Mendez -
Mauro Cavalcanti -
Tim Robertson