Meeting notes on 2022-04-06

[José Augusto Salim]

Hi everyone,

In the last meeting we agreed to work collaboratively  in the Guide for sharing biological interactions data (https://docs.google.com/document/d/111FkPFtFkxF-abFV9iSXNeFbzF4lw5SarGWuXEVmXHo/edit#). The objective is to produce a guide similar to the GBIF "Publishing DNA-derived data through biodiversity data platforms" (https://docs.gbif.org/publishing-dna-derived-data/1.0/en/#data-packaging-and-mapping), but for interactions data.

We also discussed changing the frequency of the meetings from every 2 weeks to once a month, due to the low attendance in the meetings. So, the meetings will be now in the last week of every month. I will make changes in the calendar.

Please, access the guide document and give your comments of what and how we should prepare it. It is a draft version and the document is for brainstorming ideias. In the next meeting we can discuss in more detail what must be included and what must not be included in the guide. 

Thanks.

Best wishes.

José.

--

Me. José Augusto Salim

Ph.D Student at Center on Biodiversity and Computing (www.biocomp.org.br),

Universidade de São Paulo (USP), Escola Politécnica, Laboratory of Agricultural Automation (LAA)

Tel:+55 11 3091-5104 (USP)

Cel.: +55 16 99609-3653

[Dmitry Schigel]

Dear Jose & all,

 

Thanks for the update and very nice to see that DNA guide by GBF is seen as a model for the future interactions data guide.

 

Apologies for not being able to join the latest calls of the IG.

 

I would like to flag two things:

 

• You probably heard from Paula that Tim and John, cc work actively on the evolution of the GBIF data model, and interactions is one of the many data types / scenarios being tested. I would very much like to see the alignment of this work with the guide plans of the interactions IG. I suspect everybody is actually is more informed and connected than I am, because I missed so many interaction calls lately, but thought to flag it anyway.
• If the future guide is a purely TDWG product, no need to read further, but if GBIF maintenance, format, editing, hosting of the future guide is expected, then we need to scope this work also from our end, and I am copying Laura for that.

 

In any case, writing is better than no writing as things get clearer in the process. Looking back on the DNA guide work, I would much prefer to have a detailed table of the extension before writing the narrative around it – we had to do it parallel for DNA; and it was challenging.

 

Apologies once again for anti-contribution with low attendance lately, this is not for the lack of interest.

 

Thank you in advance.

Best regards,

 

Dmitry

 

Dmitry Schigel, PhD

Scientific Officer

GBIF | Global Biodiversity Information Facility
Secretariat

Universitetsparken 15
DK-2100 Copenhagen Ø

DENMARK

 

Office                  +45 35 32 14 85

Mobile                +45 30 45 02 25

E-mail                  dsch...@gbif.org

Zoom                   https://ucph-ku.zoom.us/my/dschigel

Web                     www.gbif.org

GBIF Secretariat is recruiting two Programme Officers for Science Support
https://www.gbif.org/news/43O2JkDh0aunuij4LBZ90b

DNA derived evidence in GBIF https://bit.ly/dnagbif

Biodiversity data for research and policy on human diseases http://bit.ly/gbifvectors

Join GBIF Biodiversity Open Data Ambassadors http://bit.ly/bodamba
Northern Eurasia: GBIF progress in the Cyrillic world http://bit.ly/cyrril
GBIF enabled research http://bit.ly/gbifsci

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[Pedro Jordano]

Dear José Augusto,

thanks ever so much for the update and for the link to the document. I think it is a great initiative; I'll do my best to contribute  within my possibilities and expertise. 

I think having the meeting once per month is a good move; I'm sorry I've been too busy these last weeks because we're now in the middle of the evaluation of research proposals at the Natl Research Agency, where I chair a panel. These leaves me few degrees of freedom to attend weekly meetings. Sorry for that.

Abraço,

- Pedro

[Jorrit Poelen]

Hey José et al. -

I am encouraged by your pragmatic work to work towards a guide for
sharing species interaction data. I hope this work will not be delayed
by other initiatives: as you know, there's already so many institutions
sharing their interaction data in suitable ways (associatedTaxa,
associatedOccurrences, Resource Relations), and I hope their experiences
and best practices will somehow make it into your sharing species
interactions data guide.

I'd be happy to host/link the sharing guide prominently on
https://globalbioticinteractions.org pages .

-jorrit

PS Please note that John Wieczorek (@John please correct me if I am
wrong) informed me that his contracting work for GBIF is quite large in
scope and species interactions are not likely to be addressed anytime
soon, echoing similar initiatives in the past (e.g.,
https://www.gbif.org/document/82612/report-of-the-task-group-on-gbif-data-fitness-for-use-in-distribution-modelling).

On 4/6/22 06:25, Dmitry Schigel wrote:
> Dear Jose & all,
>
> Thanks for the update and very nice to see that DNA guide by GBF is seen
> as a model for the future interactions data guide.
>
> Apologies for not being able to join the latest calls of the IG.
>
> I would like to flag two things:
>

> * You probably heard from Paula that Tim and John, cc work actively on

> the evolution of the GBIF data model, and interactions is one of the
> many data types / scenarios being tested. I would very much like to
> see the alignment of this work with the guide plans of the
> interactions IG. I suspect everybody is actually is more informed
> and connected than I am, because I missed so many interaction calls
> lately, but thought to flag it anyway.

> * If the future guide is a purely TDWG product, no need to read

> further, but if GBIF maintenance, format, editing, hosting of the
> future guide is expected, then we need to scope this work also from
> our end, and I am copying Laura for that.
>
> In any case, writing is better than no writing as things get clearer in
> the process. Looking back on the DNA guide work, I would much prefer to
> have a detailed table of the extension before writing the narrative
> around it – we had to do it parallel for DNA; and it was challenging.
>
> Apologies once again for anti-contribution with low attendance lately,
> this is not for the lack of interest.
>
> Thank you in advance.
>
> Best regards,
>
> Dmitry
>

> **
>
> *Dmitry Schigel, PhD*
>
> Scientific Officer
>
> *GBIF | Global Biodiversity Information Facility*

> Secretariat
>
> Universitetsparken 15
> DK-2100 Copenhagen Ø
>
> DENMARK
>
> Office                  +45 35 32 14 85
>
> Mobile                +45 30 45 02 25
>

> E-mail dsch...@gbif.org <mailto:dsch...@gbif.org>
>
> Zoom https://ucph-ku.zoom.us/my/dschigel
> <https://ucph-ku.zoom.us/my/dschigel>
>
> Web www.gbif.org <http://www.gbif.org/>
>
>
> */GBIF Secretariat is recruiting two Programme Officers for Science
> Support/*/
> /https://www.gbif.org/news/43O2JkDh0aunuij4LBZ90b
> <https://www.gbif.org/news/43O2JkDh0aunuij4LBZ90b>
>
> /DNA derived evidence in GBIF /https://bit.ly/dnagbif
> <https://bit.ly/dnagbif>//
>
> /Biodiversity data for research and policy on human diseases
> /http://bit.ly/gbifvectors <http://bit.ly/gbifvectors>//
>
> /Join GBIF Biodiversity Open Data Ambassadors/http://bit.ly/bodamba
> <http://bit.ly/bodamba>
> /Northern Eurasia: GBIF progress in the Cyrillic world/
> http://bit.ly/cyrril <http://bit.ly/cyrril>
> /GBIF enabled research/ http://bit.ly/gbifsci <http://bit.ly/gbifsci>
>
> *From:*'José Augusto Salim' via TDWG Biological Interaction Data IG
> <tdwg-int...@googlegroups.com>
> *Sent:* 06 April 2022 12:58
> *To:* tdwg-int...@googlegroups.com
> *Subject:* [tdwg-interaction] Meeting notes on 2022-04-06

>
>
> Hi everyone,
>
> In the last meeting we agreed to work collaboratively  in the Guide for
> sharing biological interactions data
> (https://docs.google.com/document/d/111FkPFtFkxF-abFV9iSXNeFbzF4lw5SarGWuXEVmXHo/edit#

> <https://docs.google.com/document/d/111FkPFtFkxF-abFV9iSXNeFbzF4lw5SarGWuXEVmXHo/edit>).

> The objective is to produce a guide similar to the GBIF "Publishing
> DNA-derived data through biodiversity data platforms"
> (https://docs.gbif.org/publishing-dna-derived-data/1.0/en/#data-packaging-and-mapping

> <https://docs.gbif.org/publishing-dna-derived-data/1.0/en/#data-packaging-and-mapping>),

> but for interactions data.
>
> We also discussed changing the frequency of the meetings from every 2
> weeks to once a month, due to the low attendance in the meetings. So,
> the meetings will be now in the last week of every month. I will make
> changes in the calendar.
>
> Please, access the guide document and give your comments of what and how
> we should prepare it. It is a draft version and the document is for
> brainstorming ideias. In the next meeting we can discuss in more detail
> what must be included and what must not be included in the guide.
>
> Thanks.
>
> Best wishes.
>
> José.
>
> --
>

> *Me. José Augusto Salim*

>
> Ph.D Student at Center on Biodiversity and Computing (www.biocomp.org.br

> <http://www.biocomp.org.br/>),

>
> Universidade de São Paulo (USP), Escola Politécnica, Laboratory of
> Agricultural Automation (LAA)
>
> Tel:+55 11 3091-5104 (USP)
>

> *Cel.: +55 16 99609-3653*
>
> *Image removed by sender.*** <https://www.rebipp.org.br/>

>
> --
> You received this message because you are subscribed to the Google
> Groups "TDWG Biological Interaction Data IG" group.
> To unsubscribe from this group and stop receiving emails from it, send
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> <mailto:tdwg-interacti...@googlegroups.com>.

> To view this discussion on the web visit
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> <https://groups.google.com/d/msgid/tdwg-interaction/CADqWaUzpeuDEB%2BBZMgWKOF%2BGv8mN9woFsz5jXZo-sEuszOEDEw%40mail.gmail.com?utm_medium=email&utm_source=footer>.

>
> --
> You received this message because you are subscribed to the Google
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> To unsubscribe from this group and stop receiving emails from it, send
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[José Augusto Salim]

Hi all.

Good to hear from you.

Pedro, there is no need to apologize. I'm aware that all of us are very busy right now, especially now that COVID-19 restrictions were relaxed which makes it possible to resume any field work and other activities that had been stopped. So, changing the meetings to once a month is a temptative to fit the IG work into our agenda. 

Dimitry, thank you for flagging those points. Regarding the GBIF "Unified Common Model" or "Grand Unified Model", I was able to make small contributions to the interaction use case, based on what we have discussed in the IG. I know that you and Jorrit are aware of this model, but maybe others aren't. So, for those who want to know more about this "Unified Common Model" please see: 

- Diversifying the GBIF data model | April 2022: https://vimeo.com/695709774 

- Diversifying the GBIF Data Model. Authors: John Wieczorek (TDWG Darwin Core Maintenance Group), Tim Robertson (GBIF): https://docs.google.com/document/d/1QpXwole_j32QZAg6ddqOrAB5OOdqVJKdoKKzz06CK-o/edit

Jorrit, thank you for offering to host/link the guide. GloBI will be a very nice place to share it. I'm counting on your expertise to write a guide that would include these suitable ways to share biotic interactions data.

We can discuss more about the guide in the next meeting, but I hope until there I could have a more complete document, so we can address specific parts of it.

Many thanks.

PS: I will update the google calendar with the new dates for the meeting. 

--

Me. José Augusto Salim

Apiagri (www.apiagri.com) - Researcher and co-founder

Ph.D Student at Center on Biodiversity and Computing (www.biocomp.org.br),

Universidade de São Paulo (USP), Escola Politécnica, Laboratory of Agricultural Automation (LAA)

Tel:+55 11 3091-5104 (USP)

Cel.: +55 16 99609-3653

[Jorrit Poelen]

Hey José, Dmitry, John,

Thanks for sharing the links to the docs to GBIF's "Grand Unified Model".

Please note that the section on species interaction at
https://docs.google.com/document/d/1jzb54GbAkB_TOFIjWof5BW6gn1ujSnXXJQu6aZgFAB4
has many comments on them that are not visible for unauthorized users.
While I am impressed by the amount of work that John has taken on by
himself, I am a bit worried that the documents are released a little too
soon for a wider audience, especially because they are written with
standards-like, authoritative tone.

Today, I left the following comments on the doc (which, you may not be
able to see in the doc itself):

"Note that comments are not visible on the manuscript without login.
This makes it seem that no comments are waiting to be addressed. Is
there a way to make the comment show up in the non-login view of this
draft?"

Also, I've made the following suggestion to the document in the
acknowledgement section:

"Jorrit Poelen (review comments made before/on 2022-01-12 have yet to be
addressed)
José Augusto Salim (review comments made on 2022-02-02 have yet to be
addressed)"

Hope this helps and looking forward to providing feedback on GBIF's
approach to storing, indexing, and archiving, all the biodiversity data.

thx,
-jorrit

On 4/7/22 06:07, José Augusto Salim wrote:
> Hi all.
>
> Good to hear from you.
>
> Pedro, there is no need to apologize. I'm aware that all of us are very
> busy right now, especially now that COVID-19 restrictions were relaxed
> which makes it possible to resume any field work and other activities
> that had been stopped. So, changing the meetings to once a month is a
> temptative to fit the IG work into our agenda.
>
> Dimitry, thank you for flagging those points. Regarding the GBIF
> "Unified Common Model" or "Grand Unified Model", I was able to make
> small contributions to the interaction use case, based on what we have
> discussed in the IG. I know that you and Jorrit are aware of this model,
> but maybe others aren't. So, for those who want to know more about this
> "Unified Common Model" please see:
>
> - Diversifying the GBIF data model | April 2022:

> https://vimeo.com/695709774 <https://vimeo.com/695709774>

> <https://www.gbif.org/document/82612/report-of-the-task-group-on-gbif-data-fitness-for-use-in-distribution-modelling>).

> <mailto:dsch...@gbif.org <mailto:dsch...@gbif.org>>

> >
> > Zoom https://ucph-ku.zoom.us/my/dschigel
> <https://ucph-ku.zoom.us/my/dschigel>
> > <https://ucph-ku.zoom.us/my/dschigel
> <https://ucph-ku.zoom.us/my/dschigel>>
> >

> > Web www.gbif.org <http://www.gbif.org> <http://www.gbif.org/

> <http://www.gbif.org/>>
> >
> >
> > */GBIF Secretariat is recruiting two Programme Officers for Science
> > Support/*/
> > /https://www.gbif.org/news/43O2JkDh0aunuij4LBZ90b
> <https://www.gbif.org/news/43O2JkDh0aunuij4LBZ90b>
> > <https://www.gbif.org/news/43O2JkDh0aunuij4LBZ90b
> <https://www.gbif.org/news/43O2JkDh0aunuij4LBZ90b>>
> >
> > /DNA derived evidence in GBIF /https://bit.ly/dnagbif
> <https://bit.ly/dnagbif>
> > <https://bit.ly/dnagbif <https://bit.ly/dnagbif>>//
> >
> > /Biodiversity data for research and policy on human diseases
> > /http://bit.ly/gbifvectors <http://bit.ly/gbifvectors>
> <http://bit.ly/gbifvectors <http://bit.ly/gbifvectors>>//
> >
> > /Join GBIF Biodiversity Open Data
> Ambassadors/http://bit.ly/bodamba <http://bit.ly/bodamba>
> > <http://bit.ly/bodamba <http://bit.ly/bodamba>>
> > /Northern Eurasia: GBIF progress in the Cyrillic world/

> > http://bit.ly/cyrril <http://bit.ly/cyrril> <http://bit.ly/cyrril

> <http://bit.ly/cyrril>>
> > /GBIF enabled research/ http://bit.ly/gbifsci

> <http://bit.ly/gbifsci> <http://bit.ly/gbifsci <http://bit.ly/gbifsci>>

> >
> > *From:*'José Augusto Salim' via TDWG Biological Interaction Data IG
> > <tdwg-int...@googlegroups.com

> <mailto:tdwg-int...@googlegroups.com>>

> > *Sent:* 06 April 2022 12:58
> > *To:* tdwg-int...@googlegroups.com

> <mailto:tdwg-int...@googlegroups.com>

> > *Subject:* [tdwg-interaction] Meeting notes on 2022-04-06
> >
> >
> > Hi everyone,
> >
> > In the last meeting we agreed to work collaboratively  in the
> Guide for
> > sharing biological interactions data
> >
> (https://docs.google.com/document/d/111FkPFtFkxF-abFV9iSXNeFbzF4lw5SarGWuXEVmXHo/edit#

> <https://docs.google.com/document/d/111FkPFtFkxF-abFV9iSXNeFbzF4lw5SarGWuXEVmXHo/edit#>
>
> >
> <https://docs.google.com/document/d/111FkPFtFkxF-abFV9iSXNeFbzF4lw5SarGWuXEVmXHo/edit

> > <http://www.biocomp.org.br/ <http://www.biocomp.org.br/>>),

> >
> > Universidade de São Paulo (USP), Escola Politécnica, Laboratory of
> > Agricultural Automation (LAA)
> >
> > Tel:+55 11 3091-5104 (USP)
> >
> > *Cel.: +55 16 99609-3653*
> >
> > *Image removed by sender.*** <https://www.rebipp.org.br/
> <https://www.rebipp.org.br/>>
> >
> > --
> > You received this message because you are subscribed to the Google
> > Groups "TDWG Biological Interaction Data IG" group.
> > To unsubscribe from this group and stop receiving emails from it,
> send
> > an email to tdwg-interacti...@googlegroups.com

> <mailto:tdwg-interaction%2Bunsu...@googlegroups.com>
> > <mailto:tdwg-interacti...@googlegroups.com
> <mailto:tdwg-interaction%2Bunsu...@googlegroups.com>>.

> > To view this discussion on the web visit
> >
> https://groups.google.com/d/msgid/tdwg-interaction/CADqWaUzpeuDEB%2BBZMgWKOF%2BGv8mN9woFsz5jXZo-sEuszOEDEw%40mail.gmail.com
> <https://groups.google.com/d/msgid/tdwg-interaction/CADqWaUzpeuDEB%2BBZMgWKOF%2BGv8mN9woFsz5jXZo-sEuszOEDEw%40mail.gmail.com>
>
> >

> <https://groups.google.com/d/msgid/tdwg-interaction/CADqWaUzpeuDEB%2BBZMgWKOF%2BGv8mN9woFsz5jXZo-sEuszOEDEw%40mail.gmail.com?utm_medium=email&utm_source=footer

> <https://groups.google.com/d/msgid/tdwg-interaction/CADqWaUzpeuDEB%2BBZMgWKOF%2BGv8mN9woFsz5jXZo-sEuszOEDEw%40mail.gmail.com?utm_medium=email&utm_source=footer>>.
> >
> > --
> > You received this message because you are subscribed to the Google
> > Groups "TDWG Biological Interaction Data IG" group.
> > To unsubscribe from this group and stop receiving emails from it,
> send
> > an email to tdwg-interacti...@googlegroups.com

> <mailto:tdwg-interaction%2Bunsu...@googlegroups.com>
> > <mailto:tdwg-interacti...@googlegroups.com
> <mailto:tdwg-interaction%2Bunsu...@googlegroups.com>>.

> > To view this discussion on the web visit
> >
> https://groups.google.com/d/msgid/tdwg-interaction/AM0PR09MB23217B51EDEB428972383CB6BFE79%40AM0PR09MB2321.eurprd09.prod.outlook.com
> <https://groups.google.com/d/msgid/tdwg-interaction/AM0PR09MB23217B51EDEB428972383CB6BFE79%40AM0PR09MB2321.eurprd09.prod.outlook.com>
>
> >

> <https://groups.google.com/d/msgid/tdwg-interaction/AM0PR09MB23217B51EDEB428972383CB6BFE79%40AM0PR09MB2321.eurprd09.prod.outlook.com?utm_medium=email&utm_source=footer
> <https://groups.google.com/d/msgid/tdwg-interaction/AM0PR09MB23217B51EDEB428972383CB6BFE79%40AM0PR09MB2321.eurprd09.prod.outlook.com?utm_medium=email&utm_source=footer>>.
>
>
>
> --
> *Me. José Augusto Salim
> *
> Apiagri (www.apiagri.com <http://www.apiagri.com>) - Researcher and
> co-founder

> Ph.D Student at Center on Biodiversity and Computing (www.biocomp.org.br
> <http://www.biocomp.org.br/>),
> Universidade de São Paulo (USP), Escola Politécnica, Laboratory of
> Agricultural Automation (LAA)
> Tel:+55 11 3091-5104 (USP)*

> *
> *Cel.: +55 16 99609-3653
> *
> *
> *
> *https://www.rebipp.org.br <https://www.rebipp.org.br>
> *

[Dmitry Schigel]

Hello interactions people, do we have the group restarted?

 

Meanwhile, check this job in Stokholm. https://web103.reachmee.com/ext/I007/927/job?site=8&lang=UK&validator=d3e6a58db9058c5eab7ea3e324f063f6&job_id=23132

I know Ayco from working together in Helsinki. Job description reveals that this written by ecologists slightly naïve in interaction database building and complexity, but the fact that such a position is open is very encouraging. I think we will see more. For how long biodiversity data will be applied as if species only interact with environment, not with each other?

 

Anyway, a cool job for someone who needs a job, and Stockholm is a very ok place to live.

 

DS