Ontolog Forum

OpenOntologyRepository: OOR Team Conference Call - Fri 2009-06-12

OpenOntologyRepository team conference call, Fri 2009.06.12, 1.0~1.5 Hr. call starting 12:00pm EDT / 9:00am PDT / 6:00pm CET / 5:00pm GMT / 17:00 UTC

Conference Call Details

  • Date: Friday, June 12, 2009
  • Start Time: 12:00pm EDT / 9:00am PDT / 6:00pm CEST / 5:00pm BST / 16:00 UTC
  • Expected Call Duration: 1.0~1.5 hours
  • Dial-in Number:
    • from a US telephone (US): +1-218-486-3600 (domestic long distance cost will apply)
    • When calling in from a phone, use Conference ID: "4389979#"
    • from Europe, call:
      • Austria 0820-4000-1577
      • Belgium 070-35-9992
      • France 0826-100-280
      • Germany 01805-00-7642
      • Ireland 0818-270-037
      • Italy 0848-390-179
      • Spain 0902-886-056
      • Switzerland 0848-560-327 / 0848-414-110
      • UK 0870-738-0765
    • callers from other countries please dial into either one of the US or European numbers
  • RSVP to appreciated, ... or simply just by adding yourself to the "Expected Attendee" list below (if you are a member of the team.)
  • Please note that this session may be recorded, and if so, the audio archive is expected to be made available as open content, along with the proceedings of the call to our community membership and the public at-large under our prevailing open IPR policy.


  • Expecting:
    • ... if you are coming to the meeting, please add your name above (plus your affiliation, if you aren't already a member of the community) above, or e-mail <> so that we can reserve enough resources to support everyone's participation. ...

Agenda Ideas

please insert below (along with your name for follow-up purposes)

  • progress review on planned OOR-related events
  • reports on member activities that are OOR-related
  • ...

Agenda & Proceedings

1. Meeting called to order:

  • review and adopt agenda

2. Roll Call:

3. Status Review and Discussion:

  • Urgent issues:

Suggested topics to be covered:

  • progress review on planned OOR-related events
    • K & Michael have status updates
  • reports on member activities that are OOR-related
  • Natasha: ISWC 2009 workshop
  • Michael: OOR code development issues and discussion
  • Overview on UML diagrams of BioPortal systems
    • see:
    • Todd: UML diagrams generated by "Enterprise Architect" ... will be posting the full set ...
    • Misha: the diagrams are complete; slightly difficult to read now -- some parts not 'relevant' to BioPortal could be removed to make it more readable; with the new update, a lot of changes coming in anyway as an ontology is being used
      • Misha will help provide a list of the 'relevent' subset of classes
    • Benjamin: MDA?
      • ... Todd: probably stick with UML now, and eventually move to CL?
    • Peter / Todd: will add revision level onto the diagrams in the future ... the ones from before, we'll add a date for identification purposes
    • Peter: Misha Dorf suggested a full UML diagram and a highlight diagram ... guess Todd is working on them (haven't heard from him yet)
  • Potential for collaboration with the geospatial ontology folks - Nancy Wiegand / GaryBergCross
    • Nancy: intro; SOCoP - submitting a grant proposal to NSF again; possibility of using OOR for their work
    • Gary: intro - SOCoP secretary; use of ontology repository for interoperability, social aspect of sharing;
    • Mike: welcome the collaboration; probably some additional features needed to support geospatial ontologies
      • Nancy: how much development is expected?
    • K: how much data will be involved .. using
      • Gary: possibly using some USGS data (K: which is already linked to
    • Nancy: supporting data store ... or just ontologies
    • Todd: OOR not supposed to provide data store ... but can consider a extension project to work on
    • Nancy: is the infrastructure stable ... and expected to be around for many years?
      • Mike: the intent is "Yes!"
    • Gary: Nancy is the PI; proposal due in July;
    • Ken: already has a grant ... can share some of the language used ... Nancy will contact Ken
      • Ken: will work with Nancy on this offline
    • K: National Geospatial Symposium
  • Katherine Goodier: presented at the International Data Mnagement Data Governance Conference
    • introduced and promoted OOR ... good reception from the participants
    • K please elaborate ...
  • Progress review on planned OOR-related events:
  • Joint OOR-Ontolog Panel sessions ... on deck:
    • panel session on Protege / webProtege / BioPortal / CODS / OOR-sandbox ... and how they work together, now and in the near future ... this is more a OOR user and content providers' session (this would go right before Natasha's's OOR implementers and developers' session) - chair: Mark Musen - date confirmed Thu 16-July-2009
      • panelists will mainly be from Stanford / NCBO
    • panel session on "BioPortal-based ontology repository implementation and development" - chair: Natasha Noy - date confirmed Thu 30-July-2009
    • panel session on "OOR Research Issues" - champion: Ken Baclawski - the date needs to be rescheduled
      • candidate panelists: Michael, Leo->SuzetteStowtenburg, Natasha Noy, Elisa Kendall, Chris Welty, OOR team members from the EU, (and possibly other who were engaged when the OOR initiative first started (ref.).
      • Ken will send out a doodle scheduler on this soon!
  • OOR-related project and activities status updates:
  • OOR sandbox instance - status review -
    • Benjamin: major update - BioPortal v2.1d - to be released on 12-Jun-2009
      • Natasha/2009.06.12 - slightly delayed, release date could now be a couple of week out
    • Peter: hardware for OOR sandbox-2 (and later the production instance of OOR) will be ready fairly soon (next few days).
      • an updated version of the CODS server will also be installed on that hardware cluster
  • OOR Outreach
    • K: My presentation on June 4, 2009 at the International DAMA Data Governance conference on "Cloud Computing" promoted OOR.
  • OOR development activities
    • Michael: running into issues with trying to add FOL/CL upload/download onto the BioPortal codebase
      • Michael: issues with inherent binary relationship limitation with the existing OWL implementation (based on Protege)
      • Natasha: BioPortal now supports two backends now - the Protege backend and the LexGrid (OBO/Mayo) backend
      • Pat Cassidy: translate? ... having a CL backend for Protege would be useful
    • Peter: please continue this conversation on the [ppr-dev] list
    • K: possibly add another use case for CL
  • Other Progress updates and Discussions:
  • Funding and proposals
  • short term activity and action plans
    • see above

4. New Issues:

5. Any Other Business:

6. Action items:

  • our short-term plan:
    • tasks
    • deliverables
    • Timeline / Milestones:

7. Schedule Next Meeting & Adjourn:

  • Next Meeting:
    • next regular call will be on Fri 2009.06.26 - OOR/ConferenceCall_2009_06_26
    • Note: earlier resolution: all team members please (if possible) block out Fridays 1.5 Hr starting 12:00pm ET / 9:00am PT / 16:00 GMT/UTC
  • Call adjourned at: 9:48 am PDT


notes taken by: Peter P. Yim / 2009.06.12-9:54am PDT

All participants, please review and edit to enhance accuracy and granularity of the documented proceedings.