Cyberinfrastructure Working Group: Difference between revisions

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[[Category:Image ingestion]]
[[Category:Image ingestion]]
[[Category:Appliance]]
[[Category:Appliance]]
==About==


The Cyberinfrastructure Working Group (CYWG) was established as an outcome of the [http://www.idigbio.org/content/idigbio-it-standards-workshop iDigBio IT Standards Workshop] held in Gainesville, FL on March 28-30, 2012. In line with the iDigBio roadmap, the focus of the initial group will be on the iDigBio data ingestion procedures related to API (Application Programming Interface) or appliance specification, implementation and test.  
The Cyberinfrastructure Working Group (CYWG) was established as an outcome of the [http://www.idigbio.org/content/idigbio-it-standards-workshop iDigBio IT Standards Workshop] held in Gainesville, FL on March 28-30, 2012. In line with the iDigBio roadmap, the focus of the initial group will be on the iDigBio data ingestion procedures related to API (Application Programming Interface) or appliance specification, implementation and test.  
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The working group will produce material with concrete data ingestion use cases from [[TCNs]], provide input about the existing cyberinfrastructure, produce data ingestion requirements, and help evaluate iDigBio services and appliances implementations.  
The working group will produce material with concrete data ingestion use cases from [[TCNs]], provide input about the existing cyberinfrastructure, produce data ingestion requirements, and help evaluate iDigBio services and appliances implementations.  


To express an interest in joining the working group, please contact [http://www.idigbio.org/contact/Dr._Andrea_Matsunaga Andréa Matsunaga].  
 
==Members==
 
To express an interest in joining the working group, please contact [https://www.idigbio.org/contact/Dr._Renato_J._Figueiredo Renato Figueiredo].


Current members:  
Current members:  


*[http://www.idigbio.org/contact/Dr._Andrea_Matsunaga Andréa Matsunaga] (Co-Lead), iDigBio IT  
*[http://www.idigbio.org/contact/Renato_J._Figueiredo Renato Figueiredo] (Co-Lead), iDigBio IT  
*[http://www.idigbio.org/contact/Joanna_McCaffrey Joanna McCaffrey] (Co-Lead), iDigBio Biodiversity Informatics Manager
*[http://www.idigbio.org/contact/Joanna_McCaffrey Joanna McCaffrey] (Co-Lead), iDigBio Biodiversity Informatics Manager
*[http://www.idigbio.org/contact/Renato_J._Figueiredo Renato Figueiredo], iDigBio IT
*[http://www.idigbio.org/contact/Alex_Thompson Alex Thompson], iDigBio IT
*[http://www.idigbio.org/contact/Greg_Traub Greg Traub], iDigBio IT
*[http://www.idigbio.org/contact/Dan_Stoner Dan Stoner], iDigBio IT
*[http://www.idigbio.org/contact/Dan_Stoner Dan Stoner], iDigBio IT
*[http://www.idigbio.org/contact/Kevin_Love Kevin Love], iDigBio IT
*[http://www.idigbio.org/contact/Kevin_Love Kevin Love], iDigBio IT
*[http://www.idigbio.org/contact/Yonggang_Liu Yonggang Liu], iDigBio IT
*[http://www.idigbio.org/contact/Kyuho_Jeong Kyuho Jeong], iDigBio IT
*[http://www.idigbio.org/contact/Casey_A._McLaughlin Casey McLaughlin], iDigBio IT
*[mailto:ranglin@wisc.edu Robert Anglin] [[Documenting the Occurrence through Space and Time of Aquatic Non-indigenous Fish, Mollusks, Algae, and Plants Threatening North_America's Great Lakes| Great Lakes Invasives]] TCNs IT
*[mailto:ranglin@wisc.edu Robert Anglin] [[Documenting the Occurrence through Space and Time of Aquatic Non-indigenous Fish, Mollusks, Algae, and Plants Threatening North_America's Great Lakes| Great Lakes Invasives]] TCNs IT
*[mailto:beach@ku.edu James Beach], [[Creating A PALEONICHES| Paleoniches TCN]] IT/Co-PI, University of Kansas
*[mailto:beach@ku.edu James Beach], [[Creating A PALEONICHES| Paleoniches TCN]] IT/Co-PI, University of Kansas
*[mailto:rbeaman@nsf.gov Reed Beaman]
*[mailto:jeb0037@auburn.edu Jason Bond], [[InvertEBase: Reaching Back to See the Future: Species-rich Invertebrate Faunas Document Causes and Consequences of Biodiversity Shifts| InvertEBase]]
*[mailto:jeb0037@auburn.edu Jason Bond], [[InvertEBase: Reaching Back to See the Future: Species-rich Invertebrate Faunas Document Causes and Consequences of Biodiversity Shifts| InvertEBase]]
*[mailto:andrew.brown@kesoftware.com Andrew Brown] KE Software
*[mailto:andrew.brown@kesoftware.com Andrew Brown] Axiell Software / EMu
*[mailto:BrownH@dnr.sc.gov Herrick Brown]‎ [[The Key to the Cabinets: Building and Sustaining a Research Database for a Global Biodiversity Hotspot| SERNEC TCN]]
*[mailto:BrownH@dnr.sc.gov Herrick Brown]‎ [[The Key to the Cabinets: Building and Sustaining a Research Database for a Global Biodiversity Hotspot| SERNEC TCN]]
*[mailto:bruhnrp@yahoo.com Robert Bruhn] Biospex, IT expert, FSU
*[mailto:Nico.Franz@asu.edu Nico Franz] [[Documenting the Occurrence through Space and Time of Aquatic Non-indigenous Fish, Mollusks, Algae, and Plants Threatening North America's Great Lakes| Great Lakes Invasives]] TCNs IT
*[mailto:Nico.Franz@asu.edu Nico Franz] [[Documenting the Occurrence through Space and Time of Aquatic Non-indigenous Fish, Mollusks, Algae, and Plants Threatening North America's Great Lakes| Great Lakes Invasives]] TCNs IT
*[mailto:lawrence.gall@yale.edu Larry Gall] Yale Peabody
*[mailto:lawrence.gall@yale.edu Larry Gall] Yale Peabody
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*[mailto:cgries@wisc.edu Corinna Gries], [[North American Lichens and Bryophytes - Sensitive Indicators of Environmental Quality and Change| Lichens & Bryophytes]], PI  
*[mailto:cgries@wisc.edu Corinna Gries], [[North American Lichens and Bryophytes - Sensitive Indicators of Environmental Quality and Change| Lichens & Bryophytes]], PI  
*[mailto:Paul.Heinrich@nau.edu Paul L Heinrich], [[Southwest Collections of Arthropods Network (SCAN)| SCAN TCN]]
*[mailto:Paul.Heinrich@nau.edu Paul L Heinrich], [[Southwest Collections of Arthropods Network (SCAN)| SCAN TCN]]
*[mailto:jleigh@illinois.edu Joe Leigh], [[InvertNet: An Integrative Platform for Research on Environmental Change, Species Discovery and Identification| InvertNet TCN]] IT Data
*[mailto:chris_h@BERKELEY.EDU Chris Hoffman] University of California, Berkeley
*[mailto:dmasaki@usgs.gov Derek Masaki], BISON
*[mailto:dmasaki@usgs.gov Derek Masaki], BISON
*[mailto:garymotz@INDIANA.EDU Gary Motz] Indiana University
*[mailto:ben.norton@NATURALSCIENCES.ORG Ben Norton], North Carolina Museum of Natural Sciences
*[mailto:ben.norton@NATURALSCIENCES.ORG Ben Norton], North Carolina Museum of Natural Sciences
*[mailto:kseltmann@amnh.org Katja Seltmann], [[Thematic Focus: Collaborative Research - Plants, Herbivores, and Parasitoids: A Model System for the Study of Tri-trophic Associations| Tri-trophic TCN]] IT, AMNH
*[mailto:kseltmann@amnh.org Katja Seltmann], [[Thematic Focus: Collaborative Research - Plants, Herbivores, and Parasitoids: A Model System for the Study of Tri-trophic Associations| Tri-trophic TCN]] IT, AMNH
*[mailto:psierwald@fieldmuseum.org Petra Sierwald] [[InvertEBase: Reaching Back to See the Future: Species-rich Invertebrate Faunas Document Causes and Consequences of Biodiversity Shifts| InvertEBase]]
*[mailto:psierwald@fieldmuseum.org Petra Sierwald] [[InvertEBase: Reaching Back to See the Future: Species-rich Invertebrate Faunas Document Causes and Consequences of Biodiversity Shifts| InvertEBase]]
*[mailto:sobh@illinois.edu Nahil Sobh], [[InvertNet: An Integrative Platform for Research on Environmental Change, Species Discovery and Identification| InvertNet TCN]] IT, Co-PI
*[mailto:omarsobh@illinois.edu Omar Sobh], [[InvertNet: An Integrative Platform for Research on Environmental Change, Species Discovery and Identification| InvertNet TCN]] IT
*[mailto:mtulig@nybg.org Melissa Tulig] [[Thematic Focus: Collaborative Research - Plants, Herbivores, and Parasitoids: A Model System for the Study of Tri-trophic Associations| Tri-trophic TCN]] NYBG
*[mailto:mtulig@nybg.org Melissa Tulig] [[Thematic Focus: Collaborative Research - Plants, Herbivores, and Parasitoids: A Model System for the Study of Tri-trophic Associations| Tri-trophic TCN]] NYBG
*[mailto:kwatson@nybg.org Kim Watson] [[Thematic Focus: Collaborative Research - Plants, Herbivores, and Parasitoids: A Model System for the Study of Tri-trophic Associations| Tri-trophic TCN]] NYBG
*[mailto:kwatson@nybg.org Kim Watson] [[Thematic Focus: Collaborative Research - Plants, Herbivores, and Parasitoids: A Model System for the Study of Tri-trophic Associations| Tri-trophic TCN]] NYBG
*Ex Officio: [http://www.idigbio.org/contact/Dr.%20Jose%20Fortes José Fortes], iDigBio Director for Computational Activities  
*Ex Officio: [http://www.idigbio.org/contact/Dr.%20Jose%20Fortes José Fortes], iDigBio Director for Computational Activities


==CYWG Meetings==
==CYWG Meetings==
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*Tue, February 19th, 2013 - 1:00pm EST ([[CYWG iDigBio Image Ingestion Appliance|iDigBio Image Ingestion Appliance]] - [[Media:CYWG-ImageApplianceFeb19-2.pdf | presentation slides]])
*Tue, February 19th, 2013 - 1:00pm EST ([[CYWG iDigBio Image Ingestion Appliance|iDigBio Image Ingestion Appliance]] - [[Media:CYWG-ImageApplianceFeb19-2.pdf | presentation slides]])
*Mon, September 9th, 2013 - 10:00am EDT ([[CYWG iDigBio v3 Preview]] -[[Media:IDigBiov3Preview.pdf‎ | presentation slides]]) - release of v3 APIs as described in this document has been delayed.
*Mon, September 9th, 2013 - 10:00am EDT ([[CYWG iDigBio v3 Preview]] -[[Media:IDigBiov3Preview.pdf‎ | presentation slides]]) - release of v3 APIs as described in this document has been delayed.
*Friday, October 10, 2014 - 11:00am EDT:
*Friday, October 10, 2014 - 11:00am EDT ([[Media:CYWG_Links_of_Interest.pdf|List of all links to ppt and other useful resources]]):
** [[Media:IDigBio_Search_Portal_CYWG_2014_gtv2.pdf|iDigBio Portal]] (queries and GUI features), by Greg Traub
** [[Media:IDigBio_Search_Portal_CYWG_2014_gtv2.pdf|iDigBio Search Portal]] (queries and GUI features), by Greg Traub [https://vimeo.com/115341437 (watch)]
** [[Media:IDigBio_Data_Ingestion_CYWG_2014_dsv3.pdf|iDigBio data ingestion]] (formats, process, etc.), by Dan Stoner
** [[Media:IDigBio_Data_Ingestion_-_CYWG_2014.pdf|iDigBio Data Ingestion]] (formats, process, etc.), by Dan Stoner [https://vimeo.com/115341438 (watch)]
** [[Media:IDigBio_Architecture_CYWG_2014_atv4.pdf|iDigBio architecture and API]], by Alex Thompson
** [[Media:IDigBio_Architecture_CYWG_2014_atv4.pdf|iDigBio Architecture]], by Alex Thompson [https://vimeo.com/115341439 (watch)]
** [[Media:IDigBio_Research_CYWG_2014_amv2.pdf|Uses of the iDigBio APIs by research tools]], by Matt Collins and Andréa Matsunaga
** [[Media:IDigBio_Infrastructure_CYWG_2014_mcv2.pdf|iDigBio Infrastructure]], by Matt Collins [https://vimeo.com/115341441 (watch)]
** [[Media:IDigBio_Appliance_CYWG_2014_rfv3.pdf|iDigBio appliances update]], by Renato Figueiredo
** [[Media:IDigBio_Research_CYWG_2014_amv2.pdf|iDigBio Research Tools]], Andréa Matsunaga [https://vimeo.com/115341442 (watch)]
** [[Media:IDigBio_Appliance_CYWG_2014_rfv3.pdf|iDigBio Appliances update]], by Renato Figueiredo [https://vimeo.com/115341484 (watch)]


Meetings with individual TCNs:
Meetings with individual TCNs:
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*Tue, June 26th, 2013 - 10:00am EST ([[Plants, Herbivores, and Parasitoids: A Model System for the Study of Tri-trophic Associations|TTD-AMNH]] Data ingestion)
*Tue, June 26th, 2013 - 10:00am EST ([[Plants, Herbivores, and Parasitoids: A Model System for the Study of Tri-trophic Associations|TTD-AMNH]] Data ingestion)
*Tue, July 3rd, 2013 - 10:00am EST ([[Plants, Herbivores, and Parasitoids: A Model System for the Study of Tri-trophic Associations|TTD-AMNH]] Image ingestion)
*Tue, July 3rd, 2013 - 10:00am EST ([[Plants, Herbivores, and Parasitoids: A Model System for the Study of Tri-trophic Associations|TTD-AMNH]] Image ingestion)
Meeting with external participation:
*Friday, April 23, 2015 - 4PM EDT ([http://idigbio.adobeconnect.com/p893lqq26wj/ Data quality, usage, and issue tracking using GitHub], by John Wieczorek, et al at VertNet), in conjunction with the [[Data Management Interest Group]].
*Thursday, May 28, 2015 2:00 PM-4:00 PM ([http://idigbio.adobeconnect.com/p7ht0zf5i7p/ Towards user-definable, semi-automated workflows for curating biodiversity data], by Bob Morris, Paul Morris et al. at Filtered PUSH, Kepler Kurator, and *Akka), in conjunction with the [[Data Management Interest Group]]. Webinar announcement [https://www.idigbio.org/content/webinar-towards-user-definable-semi-automated-workflows-curating-biodiversity-data here].
**Part 1: [https://www.idigbio.org/sites/default/files/working-groups/dm/FP-Akka-iDigBio-webinar3.pdf Kurator presentation (pdf)]
**Part 2: designed for IT-oriented folks wanting to install and test. Full workflow described at: http://wiki.datakurator.net/web/iDigBioWebinar_May2015


==Documentation==
==Documentation==
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*[[iDigBio Virtual Appliances]] (November 2013)
*[[iDigBio Virtual Appliances]] (November 2013)
*[[iDigBio APIs]] (November, 2013)
*[[iDigBio APIs]] (November, 2013)
*iDigBio APIs v2 webinar (April 28, 2015)
** [https://www.idigbio.org//sites/default/files/workshop-images/ApiHackathon2015/HackathonWebinarIntro.pptx Presentation slides]:
*** Introduction, by Matt Collins
*** Search, Spatial Mapping, and Summary APIs, by Alex Thompson
*** Examples of iDigBio API uses, by Greg Traub
*** General hackathon resources and process, by Dan Stoner
** [http://idigbio.adobeconnect.com/p7o6pl2m7t5/ AdobeConnect session, includes Q/A session]
** [https://vimeo.com/126388360 Vimeo video without Q/A]
* iDigBio API Hackathon (June 3-5, 2015):
** [https://github.com/idigbio-api-hackathon/HackathonCentral/wiki Hackathon wiki]
** [https://www.idigbio.org/content/idigbio-api-hackathon-report Hackathon reports]
*[http://www.idigbio.org/content/idigbio-intellectual-property-policy Intellectual Property Policy] (April 17, 2012)
*[http://www.idigbio.org/content/idigbio-intellectual-property-policy Intellectual Property Policy] (April 17, 2012)
* View the overall [[Data Ingestion Report|count and distribution of datasets ingested into the portal]]
* View the overall [[Data Ingestion Report|count and distribution of datasets ingested into the portal]]

Latest revision as of 21:31, 24 June 2018


About

The Cyberinfrastructure Working Group (CYWG) was established as an outcome of the iDigBio IT Standards Workshop held in Gainesville, FL on March 28-30, 2012. In line with the iDigBio roadmap, the focus of the initial group will be on the iDigBio data ingestion procedures related to API (Application Programming Interface) or appliance specification, implementation and test.

The working group will produce material with concrete data ingestion use cases from TCNs, provide input about the existing cyberinfrastructure, produce data ingestion requirements, and help evaluate iDigBio services and appliances implementations.


Members

To express an interest in joining the working group, please contact Renato Figueiredo.

Current members:

CYWG Meetings

Presentations from iDigBio IT:

Meetings with individual TCNs:

  • Wed, September 04, 2013 3:00 PM-3:30 PM (NEVP)
  • Wed, September 04, 2013 2:00 PM-2:30 PM (Paleoniches)
  • Tue, August 20, 2013 1:00 PM-1:30 PM (SCAN)
  • Mon, May 13, 2013 - 2:00pm EST (InvertNet)
  • Tue, June 26th, 2013 - 10:00am EST (TTD-AMNH Data ingestion)
  • Tue, July 3rd, 2013 - 10:00am EST (TTD-AMNH Image ingestion)

Meeting with external participation:

Documentation

Related documentation from iDigBio:

Miscellaneous documentation:

Join us via AdobeConnect: http://idigbio.adobeconnect.com/it

Cyberinfrastructure Working Group listserv idigbio-cywg-l@lists.ufl.edu

Ex Officio: José Fortes, iDigBio Director for Computational Activities

Please feel welcome to explore other working groups.

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