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Calls are held every Thursday at 1 pm eastern time (GMT-5) – convert to your time at http://www.thetimezoneconverter.com – and note that the U.S. is already on daylight savings time

These calls now use WebEx and have no limit on the number of attendees – see the "Call-in Information" at the bottom of this page.

Updates

  • Brown (Ted) – rolled out some changes to templates and the sorting of the browse screens; preparing for the I-Fest
  • Colorado (Stephen) – deployed release 1.5.2 to the staging environment and rolled it out after the data update today – easy with the 3-tier build to deploy to both Colorado Springs and Boulder campuses; so far no issues. Have also releases a new automated harvesting process to testing and working through the various components, but a first successful run yesterday. 
  • Cornell (Tim) – looking at performance of the SPARQL query to bring geographic focus onto a map within the home page; the query is trying to roll up numbers for U.S. states into the total for the U.S. on the world map. Has moved from a data getter to a controller paired with an Ajax call. Working on disambiguation of people based on frequency of last names, and hoping to be able to vary the strictness of matching so that unusual last names can be matched with lower exactness than very common last names.
  • Duke (Richard) – preparing for release; looking at publications and characterizing people based on high, medium, or low publication counts to help with performance.
    • Alex – there's a session next Friday morning on troubleshooting that will touch on performance issues, and will support remote call-in
  • Indiana (Rohan) – Found a concurrency issue and have fixed it – hope to push the source code in a week or so after further testing and code review
    • 20-23 minutes of loading time for the entire University of Florida, after which the Science Map visualizations load almost instantly
    • Jim – would be happy to participate in the code review, as would Chin Hua
  • Weill Cornell (Paul) – a couple further people to test on publications ingest, and will then be deploying to production as a lookup source f
    • starting to do reports with MeSH terms – using it to look at a community of researchers to see their subject areas in common; looking at MeSH terms in published papers and comparing them to the block of MeSH terms associated with diseases; will also show how people fit into a hierarchy of MeSH terms. Will eventually want to show this for each term on an author's articles
    • Noticing that there are a lot of duplicate terms in UMLS – 3 different hits for HIV, for example, with links to different source vocabularies – had been hoping to use the cleaner hierarchy of Snomed CT but that does not have as broad a coverage as UMLS

Upcoming events

2013 Implementation Fest – April 25-26 at CU Boulder

  • A community hands-on development day is planned as an optional additional activity on Saturday the 27th, e.g. working on internationalization
    • We have interest from Costa Rica, Mexico, and France in principle – there's one room choice option that has H.323 videoconferencing
    • Please sign up as an attendee (also can register as a remote attendee) and indicate here whether you plan to be involved in the development day activity
  • 2013 VIVO Implementation Fest page has information on transportation and hotels
  • Registration page – note that there is no registration fee for the workshop
  • Schedule is available for preview on sched.org (including for mobile view) and as a Google Doc

2013 VIVO Conference Call for Posters and Papers – due May 10

VIVO 1.5.2 released 

Update from Jim Blake on the issue discovered by Arve Solland from Griffith last week.

Notable implementation and development list traffic


New
  • Memory leak requires restarting Tomcat?
    • considerations:
      • Verifying that what is being seen is actual memory usage,  not just the size of the JVM as reported by top() – check the gc (garbage collection) logs
        • adding a JSP page to force a full garbage collection may verify whether the baseline memory used by Tomcat is in fact increasing
      • Check the possibilities for thread contention that could cause the application to freeze up
      • What other sites are experiencing this problem? – checking the Cornell VIVO logs this morning
  • Any way to batch convert Ontology URIs?

Resolved but worth discussing

  • (Mark) Bug in Tomcat 7 for Ubuntu – source of the "There is no <whatever> content in your VIVO" problem from last week
Still open?
  • (Kelly) Harvester duplicates and speed issues for pulling from PubMed

Call-in Information

Topic: VIVO weekly call

Date: Every Thursday, no end date

Time: 1:00 pm, Eastern Daylight Time (New York, GMT-04:00)

Meeting Number: 641 825 891

To join the online meeting

Go to https://cornell.webex.com/cornell/e.php?AT=WMI&EventID=167096322&RT=MiM2

If requested, enter your name and email address.

Click "Join".

To view in other time zones or languages, please click the link: https://cornell.webex.com/cornell/globalcallin.php?serviceType=MC&ED=167096322&tollFree=1

If those links don't work, please visit the Cornell meeting page and look for a VIVO meeting.

To join the audio conference only

To receive a call back, provide your phone number when you join the meeting, or call the number below and enter the access code.

Call-in toll-free number (US/Canada): 1-855-244-8681

Call-in toll number (US/Canada): 1-650-479-3207

Global call-in numbers: https://cornell.webex.com/cornelluniversity/globalcallin.php?serviceType=MC&ED=161711167&tollFree=1

Toll-free dialing restrictions: http://www.webex.com/pdf/tollfree_restrictions.pdf

Access code:645 873 290

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