Calls are held every Thursday at 1 pm eastern time (GMT–4 in daylight savings, GMT-5 standard time) – convert to your time at http://www.thetimezoneconverter.com
View and edit this page permanently at https://wiki.duraspace.org/x/JfcQAg, or use the temporal Google Doc for collaborative note taking during the call.
VIVO is hiring!
DuraSpace is seeking a dynamic and entrepreneurial Project Director for the open source VIVO project (www.vivoweb.org), a world-wide community focused on creating software tools, ontologies, and services. The VIVO Project Director will have the opportunity to play a major role in a collaborative movement that will shape the future of research.
See full posting – applications are scheduled to close on or near October 23rd. Note that there is no requirement to be a U.S. citizen.
Release update
No release candidate has been created yet – progress each day.
Apps and Tools Group
Notes from Sept. 24 meeting recorded as this webcast showing a Python data checker for VIVO developed at the University of Florida.
Next meeting on Tuesday (October 8) at 1pm Eastern – Stephen Williams from the University of Colorado will host.
Upcoming Events
- 2nd Annual CASRAI International Conference, October 16-18 in Ottawa
- Conference streams: Reconnect Big Data, Reconnect the Library, and Reconnect the Machine
- http://reconnect.casrai.org
- Jon will be presenting on VIVO, along with Memorial University
- 1st Annual UCosmic Conference, October 31 in New York
- Collaborative Software Development to Address Strategic Challenges in Higher Education: Kuali, VIVO and UCosmic
- http://www.ucosmic.org/Conference.aspx
Updates
Brown
Colorado
Cornell
Duke
EPA (likely on Shutdown)
Florida
RPI
Stony Brook
Weill Cornell
- any others
Notable list traffic
See the vivo-dev-all archive and vivo-imp-issues archive for complete email threads
PubMed Harvester doesn't like particular records (Lynda, Andy)
- The Harvester is essentially unusable with PubMedFetch, due to bugs in code from NIH. Some records in PubMed have data which is not correctly handled by the NIH code. It's possible to work around these bugs by using PubMedHTTPFetch in stead of PubMedFetch. However, you need to URL-encode your search request if using the HTTP version.
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Ted: Fuseki 1.0 was released last week and I was able to get that to connect to an instance of VIVO 1.5 using the same endpoints you specified:
- VitroConnection.DataSource.endpointURI = http://localhost:3030/tdb/sparql
- VitroConnection.DataSource.updateEndpointURI =http://localhost:3030/tdb/update
- Michel: I now want to write a java program with Jena, where I insert data into the TDB. I want to use the Jena api, with model.createResource and resource.addProperty and so on.
- Ted: I use Python and RDFLib [1] for VIVO data loading. RDFLib, as of version 4, supports SPARQL 1.1 so you could use that to write directly to Fuseki
- As for learning about the VIVO ontology, one technique that I've heard recommended and find useful is to use the VIVO admin to create resources that you want to load (FacultyMember, Book, etc) and then inspect the RDF that is generated to see how the data is modeled. VIVO will serve Turtle for a resource (e.g. n1234) by pointing your browser at http://localhost:8080/vivo/rdf/n1234/n1234.ttl.
- JohnF: Specifically, take a look at the org.vivoweb.harvester.utilrepo.JenaConnect class. It's an abstract class that is extended by SDBJenaConnect and TDBJenaConnect. It should give you a good idea what you'll need to do to insert RDF into VIVO using the Jena API.
Finding grants via investigator name (Michaeleen) – having an investigator relationship with a grant is not sufficient to make the grant show up in the results for a search on person name. Jira server DuraSpace JIRA key VIVO-321
Uploading image when editing a property of an individual (Yu, Huda, JohnE, PatrickW, BrianC)
Call-in Information
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