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OpenOntologyRepository: Architecture & API Workshop-XIII - Tue 2012_09_11

Topic: OOR Architecture & API Workshop-XIII: New OOR Use Cases and their Impact on the OOR Architecture ... consideer this session, also, as "OOR Use Cases - Take-4"

Session Co-chairs: Professor Ken Baclawski & Dr. ToddSchneider

Conference Call Details

  • Date: Tuesday, 11-Sep-2012
  • Start Time: 8:30am PDT / 11:30am EDT / 5:30pm CEST / 15:30 UTC
  • Expected Call Duration: ~1.5 hours
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  • RSVP to peter.yim@cim3.com 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.

Attendees

  • Expecting:
    • ... if you are coming to the meeting, please add your name (plus your affiliation, if you aren't already a member of the community) above, or e-mail <peter.yim@cim3.com> so that we can reserve enough resources to support everyone's participation. ...
  • Regrets:
    • ...

Agenda Ideas

  • quick summary decisions
    • OOR (and possibly ISO too) to join ICOM and OASIS, OMG, IAOA, Ontolog in a renewed drive toward "Ontology-based Standards"
    • OOR to collaborate with the NKOS community
  • main discussion: new use cases for OOR, and its impact on
      • the OOR Architecture
      • the OOR API
  • stock items
    • code drive
    • content drive
    • moving from OOR sandbox to OOR production

Session Abstract & Resources

Recent Ontolog sessions, such as those in the EarthScienceOntolog mini-series, have highlighted new use cases for the design and application of ontologies.

(1) Ontologies are modularized, with each module having different versions.
(2) Ontology module versions may shift from one representation language to another over time.
(3) Ontology modules may be in different locations (ideally, OOR instances) and one needs to map between them. For example, the same leaf concepts can be categorized in more than one way by different communities, and users want to select the categorization for their specific needs.
(4) Ontology elements are often mapped to domain-specific visualizations which may vary with their use.

These new use cases represent new challenges for the design of the the OOR. This session will attempt to understand these new use cases and to propose changes to the OOR architecture for dealing with them.The various architectures and APIs for ontology repositories presented for consideration are available at OpenOntologyRepository_Architecture

Here is the status of the strawman architecture: OpenOntologyRepository_Architecture/Candidate03

In addition, there is an API of the core services that was obtained from anearlier implementation BioPortal, which is not entirely compatible with the straw man architecture, but furnishes a starting point. This API will also be discussed and modified as needed.

Finally, we need to agree on a plan for completing the development of the specification.

Here is the proposed organizing plan: OpenOntologyRepository_Architecture/GettingOrganized

We encourage all participants to update your candidate contributions to ensure your ideas are known and understood.

The following are relevant prior meetings:

Agenda & Proceedings

Archives:

1. Meeting called to order:

  • Peter P. Yim volunteered to keep a record of the proceedings
  • review and adopt agenda

2. Roll Call & Adoption of last meeting's minutes:

  • see above
  • introduction of new members (as required)
  • review of agenda

3. Key items for review and discussion today:

  • quick summary decisions
    • OOR (and possibly ISO too) to join ICOM and OASIS, OMG, IAOA, Ontolog in a renewed drive toward "Ontology-based Standards"
    • OOR to collaborate with the NKOS community
  • main discussion: new use cases for OOR, and its impact on
      • the OOR Architecture
      • the OOR API
  • stock items
    • code drive
    • content drive
    • moving from OOR sandbox to OOR production

... items below are mostly from the previous workshop, and may be updated as this session progresses.

  • Gatekeeping specifies the a set of minimal requirements that any ontology within the OOR has to meet. The latter are intended to enable the users of the OOR to find quickly ontologies that fit their needs; the criteria are not supposed to ensure the quality of the ontologies.
    • Each OOR instance declares what ontology languages it supports.
    • Every OOR instance MUST support RDFS.
      • This is required because the metadata is expressed in OMV.
      • OMV is written in OWL, but it may be sufficient to require only RDFS. This needs to be investigated.
    • Other ontology languages MAY be supported.
    • For each metadata attribute, it will be specified whether it is required or optional.
      • It MUST be specified whether the ontology is available (or to be available in the future).
      • The ontology language MUST be specified.
      • Other attributes will be handled offline by Michael Grüninger based on the OMV specification.
    • An ontology must satisfy other requirements depending on the ontology language.
      • Syntax checking is always required.
      • Consistency checking is required with some time limit.
  • Proposal for Partition of Components
    • Presentation
      • A minimal presentation module with just search and workflow
      • Browse (already in BioPortal-based sandbox)
      • Search (already in BioPortal-based sandbox)
      • Mapping (already in BioPortal-based sandbox)
      • Recommender (already in BioPortal-based sandbox)
      • Annotator (already in BioPortal-based sandbox)
      • Resource Index (already in BioPortal-based sandbox)
      • Workflow Administration
      • OOR Instance Administration
      • Other windows
    • Workflow
      • Already developed, but needs to be documented
    • Registrar
      • A minimal registrar
    • Find
      • Initially adapt a SPARQL endpoint. Which one?
    • Inference
      • Initially a part of the SPARQL endpoint
      • Other inference engines
    • Persistence
      • Initially adapt 4Store
    • Administration
      • TBD
    • Federation
      • TBD

4. Consensus, Conclusions & Follow-up Actions:

5. Any Other Business:

6. Next Meeting & Adjourn:

  • Upcoming Meetings:
    • 2012_09_18 - Tuesday: OOR Project Team Member Conference Call (the previously planned: OOR Content Workshop-IV: "Capturing FOIS Ontology Content" - Co-chair: Michael Grüninger & Mike Dean will now be postponed and will be re-scheduled.)
    • 2012_09_20 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-4: "Common Logic" - Co-chairs: Michael Grüninger & John Bateman
    • 2012_10_09 - Tuesday: OOR Project Team Member Conference Call
    • 2012_10_16 - Tuesday: OOR Metadata Workshop-VIII: "More on Ontology Mapping" and/or "Metadata in OOR for Big Data"
    • 2012_10_23 - Tuesday: "Getting OOR Development Going - Take-IX" Workshop - Chair: Mike Dean
    • ... please mark your calendars and come!
  • Call adjourned at: 10:02 am PDT

--

notes taken by: Peter P. Yim / 2012.09.11-11:11am PDT

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

Resources

  • the Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series:
    • 2011_10_20 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-1: Introducing the ISO NP 17347 "Ontology Integration and Interoperability (OntoIOp)" Standardization Effort - Co-chairs: John Bateman & Michael Grüninger - ConferenceCall_2011_10_20
    • 2011_11_03 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-2: Invited Speaker: Elisa Kendall on "Ontology-Related Metadata Standards" - Co-chairs: Michael Grüninger & John Bateman - ConferenceCall_2011_11_03
    • 2012_07_17 - Tuesday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-3: "Standardisation Coordination and Ontology Repositories" - Co-chairs: Michael Grüninger & John Bateman - ConferenceCall_2012_07_17
  • the OOR-IPR mini-series:
    • 2010_09_09 - Thursday: Joint OOR-Ontolog-NCBO-CC-IAOA-OASIS Panel Discussion - "IPR issues in Ontology and the OOR" session-1: an exposition on relevant IPR regimes - Keynote speaker: George Strawn - Chair: Peter P. Yim - Panelists: JamieClark, John Wilbanks, Bruce Perens - ConferenceCall_2010_09_09
    • 2010_09_16 - Thursday: Joint OOR-Ontolog-NCBO-CC-IAOA-OASIS Panel Discussion - "IPR issues in Ontology and the OOR" session-2: what are the IPR issues relating to open ontology repositories (and ontologies in general)? - Chair: Mark Musen - Panelists: Cameron Ross, Alan Rector, John F. Sowa, Bruce Perens, John Wilbanks, Peter P. Yim - ConferenceCall_2010_09_16
    • 2010_09_30 - Thursday: Joint OOR-Ontolog-NCBO-CC-IAOA-OASIS Panel Discussion - "IPR issues in Ontology and the OOR" session-3: discussion and consensus on licensing arrangements for the OOR Initiative, and positions we might take on related IPR issues - chair: Leo Obrst - Panelists: Peter P. Yim, Mike Dean, Bruce Perens, JamieClark - ConferenceCall_2010_09_30



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