Cyberinfrastructure Working Group: Difference between revisions

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[[Category:CYWG]][[Category:Data Ingestion]]
[[Category:CYWG]]
[[Category:Data ingestion]]
[[Category:Image ingestion]]
[[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  
*[https://www.idigbio.org/contact/Joanna_McCaffrey Joanna McCaffrey] (Co-Lead), iDigBio Program 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/Dan_Stoner Dan Stoner], iDigBio IT
*[http://www.idigbio.org/contact/Alex_Thompson Alex Thompson], iDigBio IT  
*[http://www.idigbio.org/contact/Kevin_Love Kevin Love], iDigBio IT
*[http://www.idigbio.org/contact/Yonggang_Liu Yonggang Liu], 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
*[http://www.idigbio.org/contact/Kyuho_Jeong Kyuho Jeong], iDigBio IT  
*[mailto:beach@ku.edu James Beach], [[Creating A PALEONICHES| Paleoniches TCN]] IT/Co-PI, University of Kansas
*[http://www.idigbio.org/contact/Casey_A._McLaughlin Casey McLaughlin], iDigBio IT
*[mailto:rbeaman@nsf.gov Reed Beaman]
*James Beach, [https://www.idigbio.org/wiki/index.php/Creating_A_PALEONICHES Paleoniches TCN] IT/Co-PI, University of Kansas
*[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:mbevans@nybg.org Michael Bevans], [https://www.idigbio.org/wiki/index.php/Thematic_Focus:_Collaborative_Research_-_Plants,_Herbivores,_and_Parasitoids:_A_Model_System_for_the_Study_of_Tri-trophic_Associations Tri-tropic TCN] Photography
*[mailto:andrew.brown@kesoftware.com Andrew Brown] Axiell Software / EMu
*[mailto:andrew.brown@kesoftware.com Andrew Brown] KE Software
*[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]]
*Edward Gilbert, [https://www.idigbio.org/wiki/index.php/North_American_Lichens_and_Bryophytes_-_Sensitive_Indicators_of_Environmental_Quality_and_Change Lichens & Bryophytes], and [https://www.idigbio.org/wiki/index.php/Southwest_Collections_of_Arthropods_Network_(SCAN) SCAN] TCNs IT, Symbiota  
*[mailto:bruhnrp@yahoo.com Robert Bruhn] Biospex, IT expert, FSU
*Corinna Gries, [https://www.idigbio.org/wiki/index.php/North_American_Lichens_and_Bryophytes_-_Sensitive_Indicators_of_Environmental_Quality_and_Change Lichens & Bryophytes TCN], PI  
*[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
*Paul L Heinrich, [https://www.idigbio.org/wiki/index.php/Southwest_Collections_of_Arthropods_Network_(SCAN) SCAN TCN] IT
*[mailto:lawrence.gall@yale.edu Larry Gall] Yale Peabody
*[mailto:tkirchgessner@nybg.org Tony Kirchgessner], [https://www.idigbio.org/wiki/index.php/Thematic_Focus:_Collaborative_Research_-_Plants,_Herbivores,_and_Parasitoids:_A_Model_System_for_the_Study_of_Tri-trophic_Associations Tri-trophic TCN] IT, NYBG
*[mailto:egbiodiversity@gmail.com Edward Gilbert], [[North American Lichens and Bryophytes - Sensitive Indicators of Environmental Quality and Change| Lichens & Bryophytes]], [[Southwest Collections of Arthropods Network (SCAN)| SCAN]] and [[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, Symbiota  
*[mailto:kseltmann@amnh.org Katja Seltmann], [https://www.idigbio.org/wiki/index.php/Thematic_Focus:_Collaborative_Research_-_Plants,_Herbivores,_and_Parasitoids:_A_Model_System_for_the_Study_of_Tri-trophic_Associations Tri-trophic TCN] IT, AMNH
*[mailto:cgries@wisc.edu Corinna Gries], [[North American Lichens and Bryophytes - Sensitive Indicators of Environmental Quality and Change| Lichens & Bryophytes]], PI  
*[mailto:nahil.sobh@GMAIL.COM Nahil Sobh], [https://www.idigbio.org/wiki/index.php/InvertNet:_An_Integrative_Platform_for_Research_on_Environmental_Change,_Species_Discovery_and_Identification InvertNet TCN] IT, Co-PI
*[mailto:Paul.Heinrich@nau.edu Paul L Heinrich], [[Southwest Collections of Arthropods Network (SCAN)| SCAN TCN]]
*Omar Sobh, [https://www.idigbio.org/wiki/index.php/InvertNet:_An_Integrative_Platform_for_Research_on_Environmental_Change,_Species_Discovery_and_Identification InvertNet TCN] IT
*[mailto:chris_h@BERKELEY.EDU Chris Hoffman] University of California, Berkeley
*[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: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: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
*Ex Officio: [http://www.idigbio.org/contact/Dr.%20Jose%20Fortes José Fortes], iDigBio Director for Computational Activities
 
==CYWG Meetings==


Presentations from iDigBio IT:
Presentations from iDigBio IT:
*Wed, January 23rd, 2013 - 1:00pm EST ([[CYWG iDigBio DwC-A Pull Ingestion|iDigBio DwC-A Pull Ingestion]])
*Wed, January 23rd, 2013 - 1:00pm EST ([[CYWG iDigBio DwC-A Pull Ingestion|iDigBio DwC-A Pull Ingestion]])
*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.
*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 Search Portal]] (queries and GUI features), by Greg Traub [https://vimeo.com/115341437 (watch)]
** [[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]], by Alex Thompson [https://vimeo.com/115341439 (watch)]
** [[Media:IDigBio_Infrastructure_CYWG_2014_mcv2.pdf|iDigBio Infrastructure]], by Matt Collins [https://vimeo.com/115341441 (watch)]
** [[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:
*Wed, September 04, 2013 3:00 PM-3:30 PM ([[Mobilizing New England Vascular Plant Specimen Data|NEVP]])
*Wed, September 04, 2013 2:00 PM-2:30 PM ([[Creating A PALEONICHES|Paleoniches]])
*Tue, August 20, 2013 1:00 PM-1:30 PM ([[Southwest Collections of Arthropods Network (SCAN)|SCAN]])
*Mon, May 13, 2013 - 2:00pm EST ([[InvertNet: An Integrative Platform for Research on Environmental Change, Species Discovery and Identification|InvertNet]])
*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)
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==
Related documentation from iDigBio:
Related documentation from iDigBio:
*[[Data Ingestion Guidance]]
*[[Data Ingestion Guidance]]
*[http://www.idigbio.org/content/guid-guide-data-providers-0 GUID Guide]
*[http://www.idigbio.org/content/guid-guide-data-providers-0 GUID Guide] (June 26, 2013)
*[http://www.idigbio.org/content/idigbio-data-ingestion-requirements-and-guidelines  Data Ingestion requirements and guidelines]
*[http://www.idigbio.org/content/idigbio-data-ingestion-requirements-and-guidelines  Data Ingestion Requirements and Guidelines] (May 2013)
*[https://www.idigbio.org/content/idigbio-image-file-format-requirements-and-recommendations Image format requirements and recommendations]
*[http://www.idigbio.org/content/idigbio-image-file-format-requirements-and-recommendations Image Format Requirements and Recommendations] (September 21, 2012)
*[https://www.idigbio.org/content/idigbio-intellectual-property-policy Intellectual property policy]
*[[iDigBio Virtual Appliances]] (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)
* View the overall [[Data Ingestion Report|count and distribution of datasets ingested into the portal]]
*[https://www.idigbio.org/content/idigbio-nuts-bolts-data-integration-and-ingestion iDigBio Nuts and Bolts - Data Integration and Ingestion]


Miscellaneous documentation:
Miscellaneous documentation:
*[[Example of trivial transformations on INHS fish dataset]]
*[[Example of trivial transformations on INHS fish dataset]]
*[[Example of transformations on InvertNet image metadata dataset]]


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


Ex Officio: [https://www.idigbio.org/contact/Dr.%20Jose%20Fortes José Fortes], iDigBio Director for Computational Activities  
[mailto:idigbio-cywg-l@lists.ufl.edu Cyberinfrastructure Working Group listserv] idigbio-cywg-l@lists.ufl.edu
 
Ex Officio: [http://www.idigbio.org/contact/Dr.%20Jose%20Fortes José Fortes], iDigBio Director for Computational Activities  


Please feel welcome to explore other [[IDigBio Working Groups|working groups]].
Please feel welcome to explore other [[IDigBio Working Groups|working groups]].

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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