Shortcut to temporal Google doc for meeting notes: https://goo.gl/pcvq1r
Announcements
VIVO 2015 Conference Updates
Call for Apps are due by July 27 – more info at https://www.eiseverywhere.com/file_uploads/7d63e9fd0076df0eb360f3f5eb4d05ed_UpdatedCallforAppsDoc.pdf
Final program has been posted online, along with more info on workshops, venue, etc at http://vivoconference.org/
Follow the conversation on Twitter at #VIVO15
Project Director Mike Conlon's weekly email: 2015-07-19 VIVO Project Updates (archive)
New VIVO Technical Lead announced -- Graham Triggs -- and he will start mid-September
Ontology Working Group: calls are on hold for the moment due to vacations -- stay tuned for more word after the Conference
Apps & Tools Working Group: summer break, next call September 8 at 1 PM Eastern
Link to presentation sign up sheet
Link to presentation template
Outreach and Engagement Working Group: co-chaired by Julia Trimmer of Duke and Kristi Holmes of Northwestern, this group's regular call series restarted Tuesday, July 21 at 1 PM Eastern
Task Force Updates:
A new VIVO Roadmap Task Force is forming. Please contact Mike if you have questions.
Updates
Cornell (Jon, Tim)
Jonathan -- new semantic/ontology engineer doing an independent analysis (Alex: “clean and sober VIVO review”) of VIVO Cornell extensions and their VIVO data sources, basic counts
Adding tool tips to labels (in public detail pages) for ontology properties in object editor (Public Description) will be in VIVO 1.8.1 release -- should also make this easier to customize by implementing sites
Jim has been working on fairly extensive test suite for group properties list (pulls together data for an individual page) -- needed to refactor this functionality -- not sure if will be in 1.8.1
VIVO 1.8.1 release planned for after VIVO conference with performance improvements for individual display pages which use extended FOAF properties -- Jim has add some caching of RDF on individuals and Tim has improved list view queries, but there is more work to do
General sentiment is to recommend installing 1.8 over 1.7 for most sites, rather than waiting for 1.8.1 -- caveat would be for sites starting with very large publication data sets
Dartmouth (Rodney)
Working on a tool to recommend eagle-i resources based on VIVO profile, publication, and grant data
coming up with a bag of words based on the vocabulary in eagle-i, and looks to see what words from the vocabulary are in the VIVO profile
uses cosine distance to find the most relevant resources it can
hoping to provide researchers recommendations of people they might like to talk with or resources they might not be aware of
also considering adding links from VIVO profiles to the resources they use in the eagle-i dataset at Dartmouth -- could also match up to other people’s eagle-i data outside of Dartmouth
Paul -- if you know people’s publications, you know their MeSH terms, and if eagle-i resources have been tagged with MeSH terms, there could be linkage there as well
Alex -- Violeta sent out a message that NLM has published MeSH as RDF (beta)
Paul F: Northwestern has been trying to map NLM publication types to VIVO publication types using local ontology extensions, but with the NLM publication types
Will also be trying to parse out the MeSH terms from PubMed using their URIs
Should we stay with UMLS service or switch to the NLM MeSH for VIVO?
Paul A -- UMLS has almost too many options, as an umbrella representing many (~150) source vocabularies, including more clinical terms)
In specifying the new Weill Faculty Information System will be using terms from MeSH primarily
In the context of linked data, what gets used may take precedence, which is likely to be the new NLM MeSH URIs
Using gensim library to find connections between resources and researchers.
Sparql queries to get information from VIVO.
DuraSpace
Emory
George Washington University
IFPRI -- International Food Policy Research Institute
Memorial University
Northwestern (Paul)
Have VIVO installed on staging and production servers -- on track for public release by the VIVO conference -- hoping for vivo.feinberg.northwestern.edu
Awaiting public facing URL and opened ports
On track for production VIVO in time for conference
Some Lattice Grid visualizations have been added to our VIVO staging instance
2 in now and 3 more to add
Alex -- will they be open source? yes -- continuing on the work from the Hackathon -- another app runs on the server to issue SPARQL queries and assemble the JSON data the Javascript visualizations use
Follows the University Florida model for add-in visualizations
Recently looking into the performance also -- has some effort to contribute to that so will be in touch with Jim and Tim
Will be very helpful to have Jim’s new test suite
In 1.8 we have something of the worst of both worlds -- a somewhat expensive query to get all the information for faux properties developed in 1.6, but also more complete support for faux properties in the low level data access objects
Hoping to work together that at the very least will only do one expensive things instead of doing that twice; may go for more radical rethinking of the hundreds or even thousands of very small queries
With Scripps have been trying to get very complete lists of publications from Pubmed to help people get their full list of publications for their NIH biosketch
Have added a search in Pubmed to help manage the NIH “my bibliography” -- pulling it from VIVO, which has significantly cleaned up the data
As an alternative to searching by name for my Bibliography
The NCBI batch citation manager was very helpful -- dramatically increased the number of publications in Scripps VIVO that have Pubmed ids
Moving on to additional publication types -- book chapters
Will be speaking at the German VIVO event September 9 or 10
Smithsonian
Attended Community Leadership Summit in Portland this past weekend, held just before annual OSCON conference (next year will be in Austin, TX)
CLS 2015 attendees: http://www.communityleadershipsummit.com/attendees/ (nice to see Google, Microsoft, Amazon, HP and other large corps represented)
2-day event with morning plenaries and unconference format for afternoons
Suggested and facilitated unconference session on “Surfacing expertise in your communities” with a 10-15 minute presentation on VIVO/ProfilesRNS. Had a half dozen+ attendees including someone from SWIFT representing Swiss universities, some industry folks, and a mental health support network in Oregon.
CLS is using Discourse for hosting their ongoing community discussion -- also has a wiki integration somehow (looks interesting): http://www.communityleadershipforum.com/
Others shared a related Q&A forum on http://communitybuilding.stackexchange.com/ that might be useful resource for our community leaders
Geek tool for software development analytics worth checking out: http://bitergia.com/ (useful to evaluate open source projects you are considering, VIVO included)
UCLA
University of Maryland Baltimore County
University of Pennsylvania
University of Virginia
UNAVCO
Virginia Tech
Posting a developer position on the VIVO project -- Eliza will be taking on a new role developing InfoEd for Weill Cornell
Continuing to work on ReCiter, an author disambiguation tool
Working on converting blocks of publications into structured PubMed records
Working on requirements and use cases for a Faculty Information System to replace the Office of Faculty Affairs promotion and tenure tracking system, with additional functions and tools -- separate from home-grown Faculty Review tool written in PHP-Zen, which will continue
will include validation step in workflow for certain data such as certifications, so that someone in Faculty Affairs can approve changes
looking at how to allow changes in underlying source systems
Elements has the ability to add a cloned manual record to overwrite the source system information in Elements, but it does not send notifications back to the source system
More applicable to internal data sources (at the institution)
Can always go back to the original record
VIVO likely to stay in the picture but primarily as a consumer of data
Have developed a methodology for segregating grants from a system of record from those that users may add
performance is much stronger now for non-logged in users, on Virtuoso
Notable List Traffic
See the vivo-dev-all archive and vivo-imp-issues archive for complete email threads
Call-in Information
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