<div dir="ltr">Hi <span class="" id=":6ir.1" tabindex="-1" style="">Rui</span>,<div>if you're interested we also published a checklist of rust fungi recently using the resource relationship extension (<span class="" id=":6ir.2" tabindex="-1" style="">https</span>://www.<span class="" id=":6ir.3" tabindex="-1" style="">gbif</span>.org/<span class="" id=":6ir.4" tabindex="-1" style="">dataset</span>/b043c480-dd36-4f4f-aa82-e188753ff09d).</div><div>I total agree with you about the importance of species interactions. I'm glad <span class="" id=":6ir.6" tabindex="-1" style="">GBIF</span> has some plans for this.</div><div>We have an interactions workshop at this year's <span class="" id=":6ir.7" tabindex="-1" style="">TDWG</span> meeting and I hope we will hear more about approaches to this problem.</div><div>Quentin</div></div><div class="gmail_extra"><br clear="all"><div><div class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><br></div><div><br></div><div>Dr. Quentin Groom</div><div>(Botany and Information Technology)</div><div><br></div><div>Botanic Garden Meise</div><div>Domein van Bouchout</div><div>B-1860 Meise</div><div>Belgium</div><div><br></div><div><a href="http://orcid.org/0000-0002-0596-5376" target="_blank">ORCID: 0000-0002-0596-5376</a></div><div><br></div><div>Landline; +32 (0) 226 009 20 ext. 364</div><div>FAX: +32 (0) 226 009 45</div><div><br></div><div>E-mail: <a href="mailto:quentin.groom@plantentuinmeise.be" target="_blank">quentin.groom@plantentuinmeise.be</a></div><div>Skype name: qgroom</div><div>Website: <a href="http://www.botanicgarden.be" target="_blank">www.botanicgarden.be</a></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div>
<br><div class="gmail_quote">On 28 June 2018 at 16:07, Rui Figueira <span dir="ltr"><<a href="mailto:ruifigueira@isa.ulisboa.pt" target="_blank">ruifigueira@isa.ulisboa.pt</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div text="#000000" bgcolor="#FFFFFF">
<p>Hi Tim,</p>
<p>I am glad to hear that species interactions will be incorporated
in the next data model and indexing. I agree that it is not an
easy task, but it is getting more and more attention, so I would
say that supporting it is very important for GBIF in the future.</p><span class="">
<p>Best regards,</p>
<p>Rui <br>
</p>
<pre class="m_-1356333163570509552moz-signature" cols="72">------------------
Rui Figueira
Coordenador do Nó Português do GBIF
<a class="m_-1356333163570509552moz-txt-link-abbreviated" href="mailto:ruifigueira@isa.ulisboa.pt" target="_blank">ruifigueira@isa.ulisboa.pt</a>
Instituto Superior de Agronomia
Herbário
Tapada da Ajuda, 1349-017 Lisboa, Portugal
Tel. +351 213653165 | Fax. +351 213653195
<a class="m_-1356333163570509552moz-txt-link-freetext" href="http://www.gbif.pt" target="_blank">http://www.gbif.pt</a>
<a class="m_-1356333163570509552moz-txt-link-freetext" href="http://www.isa.ulisboa.pt" target="_blank">http://www.isa.ulisboa.pt</a></pre>
</span><div><div class="h5"><div class="m_-1356333163570509552moz-cite-prefix">On 06/28/2018 02:52 PM, Tim Robertson
wrote:<br>
</div>
<blockquote type="cite">
<div class="m_-1356333163570509552WordSection1">
<p class="MsoNormal"><span>Thanks
for raising this Rui<u></u><u></u></span></p>
<p class="MsoNormal"><span><u></u> <u></u></span></p>
<p class="MsoNormal"><span>This
is just a note to say that we are beginning to discuss
starting the design of a more expressive model for data
exchange, and indexing.<u></u><u></u></span></p>
<p class="MsoNormal"><span>I
am afraid that is not a short term task though, but it will
of course cover interactions (species related and evidence
of interactions). As things progress, your input would be
very welcome, both on this topic and the broader model.<u></u><u></u></span></p>
<p class="MsoNormal"><span><u></u> <u></u></span></p>
<p class="MsoNormal"><span>Thanks,<u></u><u></u></span></p>
<p class="MsoNormal"><span>Tim<u></u><u></u></span></p>
<p class="MsoNormal"><span><u></u> <u></u></span></p>
<div style="border:none;border-top:solid #b5c4df 1.0pt;padding:3.0pt 0cm 0cm 0cm">
<p class="MsoNormal"><b><span style="font-size:12.0pt;color:black">From: </span></b><span style="font-size:12.0pt;color:black">IPT
<a class="m_-1356333163570509552moz-txt-link-rfc2396E" href="mailto:ipt-bounces@lists.gbif.org" target="_blank"><ipt-bounces@lists.gbif.org></a> on behalf of Rui
Figueira <a class="m_-1356333163570509552moz-txt-link-rfc2396E" href="mailto:ruifigueira@isa.ulisboa.pt" target="_blank"><ruifigueira@isa.ulisboa.pt></a><br>
<b>Date: </b>Thursday, 28 June 2018 at 15.45<br>
<b>To: </b>Markus Döring <a class="m_-1356333163570509552moz-txt-link-rfc2396E" href="mailto:mdoering@gbif.org" target="_blank"><mdoering@gbif.org></a><br>
<b>Cc: </b><a class="m_-1356333163570509552moz-txt-link-rfc2396E" href="mailto:ipt@lists.gbif.org" target="_blank">"ipt@lists.gbif.org"</a>
<a class="m_-1356333163570509552moz-txt-link-rfc2396E" href="mailto:ipt@lists.gbif.org" target="_blank"><ipt@lists.gbif.org></a>, helpdesk
<a class="m_-1356333163570509552moz-txt-link-rfc2396E" href="mailto:helpdesk@gbif.org" target="_blank"><helpdesk@gbif.org></a><br>
<b>Subject: </b>Re: [IPT] update of Darwin Core Resource
Relationship extension<u></u><u></u></span></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<p>Hi Markus,<u></u><u></u></p>
<p>Thank you for your quick reply.<u></u><u></u></p>
<p>I understand the need to make the updated extension
"correct", accordingly to the "class".<u></u><u></u></p>
<p>However, the lack of implementation on GBIF in ingesting
related resources is a point of concern.<u></u><u></u></p>
<p>It brings to my memory the XVII Congress of the European
Mycological Association (EMA), in 2015, in Madeira. In that
congress, Dmitry Schigel and myself, we were invited to
organise a symposium on Biodiversity Informatics and Fungal
Data, in the end of the first day. But, in the opening plenary
session of the the conference, the President of EMA, David
Minter, stated with emphasis that GBIF deliberately lacked
support to all mycological researcher community. His main
argument was that GBIF does not support interactions between
species, which is critical data for many fungi species.
Unfortunately, I think we have to agree with him!<u></u><u></u></p>
<p>Using associatedTaxa is a limited solution if we want to
document the occurrence of the interaction. And using the
extension will create problems when documenting interactions
between different biological groups, namely in the metadata
description.<u></u><u></u></p>
<p>I came across this problem precisely because I am preparing
and update of a dataset of fungi
<a href="https://www.gbif.org/dataset/651c0bec-bd78-4300-bbb0-5ed172fc82af" target="_blank">https://www.gbif.org/dataset/<wbr>651c0bec-bd78-4300-bbb0-<wbr>5ed172fc82af</a>,
where all fungi are associated with a plant host. The use of
the extension would allow us to define, for example, the
establishment means of the host. But, if GBIF is not ingesting
the resource relationship, we are only left with the option of
using associatedTaxa and occurrenceRemarks to document
interactions, which is not my preferred option.<u></u><u></u></p>
<p>Best regards,<u></u><u></u></p>
<p>Rui<u></u><u></u></p>
<pre>------------------<u></u><u></u></pre>
<pre><u></u> <u></u></pre>
<pre>Rui Figueira<u></u><u></u></pre>
<pre>Coordenador do Nó Português do GBIF<u></u><u></u></pre>
<pre><a href="mailto:ruifigueira@isa.ulisboa.pt" target="_blank">ruifigueira@isa.ulisboa.pt</a><u></u><u></u></pre>
<pre>Instituto Superior de Agronomia<u></u><u></u></pre>
<pre>Herbário<u></u><u></u></pre>
<pre>Tapada da Ajuda, 1349-017 Lisboa, Portugal<u></u><u></u></pre>
<pre>Tel. +351 213653165 | Fax. +351 213653195<u></u><u></u></pre>
<pre><a href="http://www.gbif.pt" target="_blank">http://www.gbif.pt</a><u></u><u></u></pre>
<pre><a href="http://www.isa.ulisboa.pt" target="_blank">http://www.isa.ulisboa.pt</a><u></u><u></u></pre>
<div>
<p class="MsoNormal">On 06/28/2018 11:38 AM, Markus Döring
wrote:<u></u><u></u></p>
</div>
<blockquote style="margin-top:5.0pt;margin-bottom:5.0pt">
<p class="MsoNormal">Hi Rui, <u></u><u></u></p>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal">the scientificName term was dropped
because it is not part of the regular DwC relation
"class":<u></u><u></u></p>
</div>
<div>
<p class="MsoNormal"><a href="http://rs.tdwg.org/dwc/terms/index.htm#relindex" target="_blank">http://rs.tdwg.org/dwc/terms/<wbr>index.htm#relindex</a><u></u><u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal">The resource relation can relate any
kind of things and GBIF needs to lookup the ids to find
the scientificName of the related resource in your case.
Unfortunately this is not implemented right now, so by
upgrading to the latest "correct" version of the extension
you will lose the related scientific name on the GBIF
occurrence page. <u></u><u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal">When I look at your example the data is
a little unexpected though.<u></u><u></u></p>
</div>
<div>
<div>
<p class="MsoNormal">The relatedResourceID is given as
701c94f1-16eb-4c1e-8449-<wbr>f3b046100187:<u></u><u></u></p>
</div>
</div>
<div>
<p class="MsoNormal"><a href="https://api.gbif.org/v1/occurrence/1585354292/verbatim" target="_blank">https://api.gbif.org/v1/<wbr>occurrence/1585354292/verbatim</a><u></u><u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal">This should be the occurrenceID of the
occurrence record for the plant it feeds on (<span>Pistacia
terebinthus)</span><u></u><u></u></p>
</div>
<div>
<p class="MsoNormal">If I lookup this record in your dataset
it is missing:<u></u><u></u></p>
</div>
<div>
<p class="MsoNormal"><a href="https://www.gbif.org/occurrence/search?dataset_key=85a3c886-3312-45c9-b040-4d7634653246&occurrence_id=701c94f1-16eb-4c1e-8449-f3b046100187&advanced=1" target="_blank">https://www.gbif.org/<wbr>occurrence/search?dataset_key=<wbr>85a3c886-3312-45c9-b040-<wbr>4d7634653246&occurrence_id=<wbr>701c94f1-16eb-4c1e-8449-<wbr>f3b046100187&advanced=1</a><u></u><u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal">If I look at the taxonomic overview of
your dataset it is all Arthropoda, so the related food
plants all seem to be excluded?<u></u><u></u></p>
</div>
<div>
<p class="MsoNormal"><a href="https://www.gbif.org/occurrence/taxonomy?dataset_key=85a3c886-3312-45c9-b040-4d7634653246&advanced=1" target="_blank">https://www.gbif.org/<wbr>occurrence/taxonomy?dataset_<wbr>key=85a3c886-3312-45c9-b040-<wbr>4d7634653246&advanced=1</a><u></u><u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal">If you only want to annotate an
occurrence record with the plant it feeds on you should
not be using the relations extension but instead look into
dwc:associatedTaxa: <a href="http://rs.tdwg.org/dwc/terms/index.htm#associatedTaxa" target="_blank">http://rs.<wbr>tdwg.org/dwc/terms/index.htm#<wbr>associatedTaxa</a><u></u><u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal">With regards,<u></u><u></u></p>
</div>
<div>
<p class="MsoNormal">Markus<u></u><u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
<div>
<div>
<p class="MsoNormal"><br>
<br>
<u></u><u></u></p>
<blockquote style="margin-top:5.0pt;margin-bottom:5.0pt">
<div>
<p class="MsoNormal">On 28. Jun 2018, at 12:14, Rui
Figueira <<a href="mailto:ruifigueira@isa.ulisboa.pt" target="_blank">ruifigueira@isa.ulisboa.pt</a>>
wrote:<u></u><u></u></p>
</div>
<p class="MsoNormal"><u></u> <u></u></p>
<div>
<div>
<p class="MsoNormal">Hi IPT list members,<br>
<br>
Could anyone help me to understand what are the
implications of doing an update of the Darwin Core
Resource Relationship extension, that our IPT
installation is asking to update?<br>
<br>
I am particularly concerned with the dataset <a href="http://ipt.gbif.pt/ipt/resource?r=edp_tua_arthropoda_eia" target="_blank">
http://ipt.gbif.pt/ipt/<wbr>resource?r=edp_tua_arthropoda_<wbr>eia</a>, that is
using this extension. The table
resourcerelationship.txt in the dataset uses the
term scientificName to identify the name of the
tree where larva of butterflies feed on. This is
reflected in the occurrence data at <a href="http://gbif.org" target="_blank">gbif.org</a>,
for example, in this record:
<a href="https://www.gbif.org/occurrence/1585354292" target="_blank">https://www.gbif.org/<wbr>occurrence/1585354292</a>.<br>
<br>
I noticed that the update of the extension dropped
the term scientificName. So, could anyone guide me
on the changes that I need to do in the dataset,
in order to be able to update the extension and
have the same or equivalent information about the
relationship in the record at <a href="https://www.gbif.org/occurrence/1585354292?" target="_blank">https://www.gbif.org/<wbr>occurrence/1585354292?</a><br>
<br>
Best regards,<br>
<br>
Rui<br>
<br>
-- <br>
------------------<br>
<br>
Rui Figueira<br>
Coordenador do Nó Português do GBIF<br>
<a href="mailto:ruifigueira@isa.ulisboa.pt" target="_blank">ruifigueira@isa.ulisboa.pt</a><br>
Instituto Superior de Agronomia<br>
Herbário<br>
Tapada da Ajuda, 1349-017 Lisboa, Portugal<br>
Tel. +351 213653165 | Fax. +351 213653195<br>
<a href="http://www.gbif.pt" target="_blank">http://www.gbif.pt</a><br>
<a href="http://www.isa.ulisboa.pt" target="_blank">http://www.isa.ulisboa.pt</a><br>
<br>
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<a href="https://lists.gbif.org/mailman/listinfo/ipt" target="_blank">https://lists.gbif.org/<wbr>mailman/listinfo/ipt</a><u></u><u></u></p>
</div>
</div>
</blockquote>
</div>
<p class="MsoNormal"><u></u> <u></u></p>
</div>
</blockquote>
<p class="MsoNormal"><br>
<br>
<u></u><u></u></p>
</div>
</blockquote>
<br>
</div></div></div>
<br>______________________________<wbr>_________________<br>
IPT mailing list<br>
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<br></blockquote></div><br></div>