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OpenOntologyRepository: Architecture & API Workshop-III - Fri 2011_03_25

Note that we have a hard stop after 1 hour, and therefore, we need to start the session promptly. Please try to dial-in 5 minutes before the scheduled start-time. Be careful about the start time too, due to varying Daylight Saving Time implementation at different countries now!

Topic: "OOR Architecture & API Specification Development Workshop-III"

Session Co-chairs: KenBaclawski & ToddSchneider

Conference Call Details

  • Date: Friday, 25-Mar-2011
  • Start Time: 9:00am EDT / 6:00am PDT / 2:00pm CET / 1:00pm GMT / 13:00 UTC
  • Expected Call Duration: 1.0 hours (more like 55 minutes)
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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 above (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. ...

Agenda Ideas

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

  • The specifications to be discussed at the meeting are the following (not necessarily discussed in this order):
    • the OOR Architecture
    • the OOR API
    • the Organizing Plan
    • the default development platform
  • Todd Schneider (ref.): - agenda to include:
    • 0) Adopting (formally) the work from the last workshop, modulo any discussion/modifications entered on the wiki page.
    • 1) Decomposing the 'Workflow' component into its various subcomponents.
  • Peter: we should really try to get into a position whereby people can start contributing code ASAP

Abstract

As a result of the two OOR Architecture and API panel sessions, we have seen a large number of architectures and APIs for ontology repositories. We have had requirements for the OOR, at least in broad outline form, since the Ontology Summit 2008. We have been running an OOR sandbox based on BioPortal. Most recently, we have forked from the BioPortal code base with the intention of proceeding separately with the development of a reference implementation.

The various architectures and APIs for ontology repositories are available at OpenOntologyRepository_Architecture

At this meeting we begin the process of producing the actual OOR specification. It will be run as a workshop where the straw man proposal will be discussed and modified as needed.

Here is the straw man architecture: OpenOntologyRepository_Architecture/Candidate03

In addition, there is an API of the core services that was obtained from 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.

Here is the API expressed in WSDL: http://www.ccs.neu.edu/home/kenb/oor/OORService.wsdl

Here is the API expressed in Java: http://www.ccs.neu.edu/home/kenb/oor/OORI.java

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 to up date your candidate contributions to ensure your ideas are known and understood.

The following are relevant prior meetings:

  • Architecture & API Specification Development Workshop-I - OOR/ConferenceCall_2011_03_11
  • Architecture & API Specification Development Workshop-I - OOR/ConferenceCall_2011_03_04
  • 2011.02.04 discussion
  • 2010_11_19 - Friday: OOR Panel Discussion - "(Post-BioPortal fork) OOR Architecture and API - Take-II" - Co-chairs: Ken Baclawski & Michael Grüninger - Panelists: KenBaclawski+ToddSchneider, AldoGangemi+AlessandroAdamou, JouniTuominen+KimViljanen, Eric Chan - OOR/ConferenceCall_2010_11_19   
  • 2010_10_15 - Friday: OOR Project Team Member Conference Call - discussion on the (post-BioPortal fork) OOR Architecture and API - OOR/ConferenceCall_2010_10_15   

Agenda & Proceedings

1. Meeting called to order:

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

3. Key items for review and discussion today:

  • "OOR Architecture & API Specification Development Workshop-III:" (Archives)

-- begin in-session chat-transcript --

Peter P. Yim: = OpenOntologyRepository: Architecture & API Workshop-III - Fri 2011_03_25 =

anonymous Tim Darr

Peter P. Yim: Ken Baclawski and All: minutes of the last meeting adopted, as captured on the

session page at: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_03_11

Peter P. Yim: ref. KenBaclawski's documentation on "workflow"

- see: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_03_11#nid2PQH

Peter P. Yim: paper is at: http://www.ccs.neu.edu/home/kenb/oor/workflow.pdf and the API is

at: http://www.ccs.neu.edu/home/kenb/oor/workflowAPI.pdf

Peter P. Yim: ref. use cases documentation, see: http://ontolog.cim3.net/cgi-bin/wiki.pl?OpenOntologyRepository_UseCases

Peter P. Yim: OOR use cases, in particular, see: http://ontolog.cim3.net/file/work/OOR/OOR-Use-Cases/oor-usecase-v2.xml

Peter P. Yim: Ken and Todd ... if you could capture some of the conversation into the chat for the records,

that would be great!

Todd Schneider: The architecture diagram on http://ontolog.cim3.net/cgi-bin/wiki.pl?OpenOntologyRepository_Architecture/Candidate03

has been updated to the 11 March 2011 changes.

Todd Schneider: Definition: Workflow = a sequence of possible actions that can be undertaken in the system

Todd Schneider: The OOR supports a multiplicity of workflows

Todd Schneider: Registrar - Human Role: 0) Approves workflows or change thereto; 1) Approves workflow stewards (for a community)

Ken Baclawski: The problem of the granularity of registration is a continuing issue. While there

is general agreement that the granule (administered item) should be an ontology version

(or ontology module version) as well as associated item such as mappings, configurations,

this clashes somewhat with the OOR API that we have right now (based on BioPortal) which has methods for

updating ontologies.

Ken Baclawski: To allow the OOR to develop independently of BioPortal while at the same time

taking advantage of the continuing development of BioPortal, I suggested that the Workflow component

act as a facade (in the sense of design patterns) over the BioPortal core.

-- end of in-session chat-transcript --

4. Any Other Business:

5. Action items:

6. Schedule Next Meeting & Adjourn:

  • Next Meeting:
    • next week - we will be having the regular OOR team meeting on Fri 2011.04.01
    • after that, another Architecture-API workshop session? - (TBD) OOR-Architecture-API workshop (IV) team session, Friday, for 1 hours only - Fri 2011.04.08 - 6:00am PST / 9:00am EST (ref. worldclock)
    • Note: earlier resolution: all team members please (if possible) block out Fridays 1.5 Hr
    • ref. our doodle poll (see: http://doodle.com/a2snxkpkd8hhxek4 ), looks like we can settle in on two new meeting times - a 6:00am PT (14:00 UTC) and an 8:30am PT (16:30 UTC) (or something in between) ...
  • Call adjourned at: 7:00am am PDT

--

notes taken by: Peter P. Yim / 2011.03.27-1:45m PDT

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

Resources



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