Ontolog Forum
OpenOntologyRepository: OOR Development Workshop-VII - Tue 2012_02_28
This is our 7th OOR-dev workshop, which is devoted to the topic of how we should be organized to getting real OOR-related open source software development work going. Specifically, we shall use this session to compare notes on the initial experience of various sub-team trying to make a first attempt on adding code to the existing BioPortal codebase.
Topic: "Getting OOR Development Going - Take VII"
Session Chair: KenBaclawski
Conference Call Details
- Date: Tuesday, 28-Feb-2012
- Start Time: 8:30am PST / 11:30am EST / 5:30pm CET / 16:30 UTC
- ref: World Clock
- Expected Call Duration: ~1.5 hours
- Dial-in:
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- This session, like all other Ontolog events, is open to the public. Information relating to this session is shared on this wiki page: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_02_28
- 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
- Attended:
- 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. ...
- Regrets:
Agenda Ideas
please insert any additional items below (along with your name for follow-up purposes)
- OOR: sandbox, dev-, test-, socop-, instances - quick status update
- (for the next call) differentiating the various instances
- Michael Grüninger: [announce] the Bremen group's plan to use a set of student projects to implement some OOR functionality
- comparing notes on the first attempts to add code/tab to the BioPortal codebase
- Getting us to a stage when we can run a OOR-production box
- planning and coordination on upcoming OOR events
- ... (for this or next call) discussion: justifying "oor.net"
Agenda & Proceedings
- audio recording of the session [ 0:46:51 ; mp3 ; 5.36 MB ]
- chat-transcript of this session
1. Meeting called to order:
- Ken Baclawski takes the chair and welcome everyone
- review and adopt agenda
- Peter P. Yim volunteered to take notes
2. Roll Call:
- see above
- welcome and intro of new member(s) (if applicable)
3. Status Review and Discussion:
- Review and update our "Most Critical Task(s) At Hand" list ...(we will skip this stock agenda item at today's call.)
4. Key items for review and discussion today
- OOR: sandbox- (oor-03), socop- (oor-04), dev- (oor-05), test- (oor-06), instances - quick status update
- everyone should test with oor-06
- oor-01 is obsolete [action: Peter P. Yim will arrange to bring it down]
- Michael will make the COLORE repository at: http://code.google.com/p/colore/source/browse/ to be accessible as http://colore.oor.net - [action: Peter P. Yim to arrange]
- (for the next call) differentiating the various instances
- Michael Grüninger: [announce] the Bremen group's plan to use a set of student projects to implement some OOR functionality
- TillMossakowski's course - students doing some rapid prototype ... they are starting a google-doc on this (which they will share with us soon) ... note that this is independent of the OntoIOp work.
- OntoIOp project will look towards working with OOR as discussed in this ISO WG's recent (2012.02.23) Berlin meeting.
- comparing notes on the first attempts to add code/tab to the BioPortal codebase
- Ken Baclawski - have created a "new page", not a "new tab" yet (as that requires some image editing work, which Ken doesn't have the tools or experience for)
- see: http://oor-03.cim3.net/ - within the "Find an ontology" box - see: "Browse Ontologies > Experiment"
- Ken: this is a bottleneck for anyone to put up a new tab [Ken will make a suggestion to the NCBO folks]
- Ken Baclawski - have created a "new page", not a "new tab" yet (as that requires some image editing work, which Ken doesn't have the tools or experience for)
- Getting us to a stage when we can run a OOR-production box
- planning and coordination on upcoming OOR events
- ... (for this or next call) discussion: justifying "oor.net"
... Notes below are from previous meeting(s), and will be updated as this meeting progresses.
- OOR: sandbox, devbox, socop-instance status update
- ref. http://oor-03.cim3.net is the current OOR_SandBox
- <oor-04.cim3.net> is up (still on CANTOR) and accessible as: http://socop.oor.net
- Peter: WITTGENSTEIN is now up, running [[CentOS]] 6.2, now testing/debugging KVM-based virtualization
- since we are running multiple instances, we need some means to differentiate, e.g. color scheme for instant recognition of the different instances; clearly identifying software revision level; differentiating support questions from the sandbox, socop, or dev instance. ... [for discussion at the next Mar-6 call - Michael Grüninger will take a lead on this!]
- probably time to start discussing metadata for "ontology repositories" (not just for "ontologies") ... we would need this to support federation, presumably! [to be discussed on the next team meeting (Mar-6)!]
- planning and coordination on upcoming OOR events
- Mar-6 team meeting
- re-scheduling metadata (VI?) session: with Mike Bennett on financial metadata - some time in Mar-2012 (say, Mar-13) - [MichaelGruninger]
- OOR Architecture & API Workshop-XII now scheduled for (Mar-20) - Ken & Todd
- next Content workshop ...?
- ... lining up more?
- re-scheduling Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-3: on "ISO/IEC 24707 Common Logic and IKL" [MichaelGruninger & JohnBateman] ... will discuss off-line and revert (as OntoIOp is also meeting every other week now)
- Getting us to a stage when we can run a OOR-production box ... (item skipped; discussion deferred)
5. Funding progress:
6. Any Other Business:
7. Action items:
8. Schedule Next Meeting & Adjourn:
- Next Meetings:
- 2012_03_06 - next Regular OOR Team meeting - first Tuesday of the month - OOR/ConferenceCall_2012_03_06
- next Metadata workshop (VI) on Tue 2012.03.13
- we might swap the two dates - Mar-6 & Mar-13 ... [MichaelGruninger will confirm ASAP]
- next Architecture API workshop (XI) on Tue 2012.03.20
- Call adjourned at: 9:18 am PST
--
notes taken by: Peter P. Yim / 2012.02.28-9:19am PST
All participants, please review and edit to enhance accuracy and granularity of the documented proceedings.
Resources
- homepage - OpenOntologyRepository - http://OpenOntologyRepository.org
- OOR Charter - To promote the global use and sharing of ontologies by: 1. establishing a hosted registry-repository; 2. enabling and facilitating open, federated, collaborative ontology repositories; 3. establishing best practices for expressing interoperable ontology and taxonomy work in registry-repositories.
- "Ontology Repository" Definition - "An ontology repository is a facility where ontologies and related information artifacts can be stored, retrieved and managed"
- Team mailing list:
- OOR-Team discussion: [ oor-forum ] message archives - http://ontolog.cim3.net/forum/oor-forum/
- OOR-Users discussion and support: [ oor-users ] message archives - http://ontolog.cim3.net/forum/oor-users/
- Developers mailing list: [ oor-dev ] message archives - http://ontolog.cim3.net/forum/oor-dev/
- proceedings of our previous meetings, panel discussions and workshops
- the Joint OOR-OntologySummit2008 Panel Discussions:
- 2008_02_28 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "Ontology Registry and Repository Technology & Infrastructure Landscape" - Co-chairs: Leo Obrst & Frank Olken; Panelists: Bruce Bargmeyer, Mike Dean, Mark Musen, Farrukh Najmi & Peter P. Yim - ConferenceCall_2008_02_28
- 2008_03_27 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "An Open Ontology Repository: Rationale, Expectations & Requirements - Session-1" - Chair: Leo Obrst & Fabian Neuhaus; Panelists: William Bug, Evan Wallace, JohnLMcCarthy, Ken Baclawski, Peter Benson & Rex Brooks - ConferenceCall_2008_03_27
- 2008_04_03 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "An Open Ontology Repository: Rationale, Expectations & Requirements - Session-2" - Chair: Leo Obrst & Fabian Neuhaus; Panelists: Doug Lenat, Deke Smith, Marcia Zeng, Denise Bedford, Pat Hayes, Mala Mehrotra & Rob Raskin - ConferenceCall_2008_04_03
- 2008_04_10 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "Developing an Ontology of Ontologies for OOR" - Co-chairs: Barry Smith & Michael Grüninger; Panelists: Michael Grüninger, Peter Haase, Natasha Noy & Elisa Kendall - ConferenceCall_2008_04_10
- the OOR Development panel sessions:
- 2008_08_22 - Friday: OOR Panel Discussion: "Getting OOR Development Off the Ground: Identifying Synergies & Gaps" (Take-1) - Chair: Leo Obrst; Panelists: Mike Dean, Mark Musen, Li Ding, Bruce Bargmeyer & Bill Andersen - ConferenceCall_2008_08_22
- 2009_02_19 - Thursday: Joint Ontolog-OOR Panel Discussion: "Getting OOR Development Off the Ground (Take-2): the work begins" - Chair: Todd Schneider; Panelists: Mark Musen, Natasha Noy, Mike Dean, Paul Buitelaar / Andreas Harth, Mathieu Daquin, Ken Baclawski, Michael Grüninger - ConferenceCall_2009_02_19
- 2009_07_16 - Thursday: Joint Ontolog-OOR Panel Discussion: "Integrated tools for ontology development and management: A field guide to the Stanford technology" - Chair: Mark Musen - Panelists: Tania Tudorache, Tim Redmond, Natasha Noy - ConferenceCall_2009_07_16
- 2009_07_30 - Thursday: Joint Ontolog-OOR Panel Discussion: "BioPortal and related Ontology Repository Implementations and Development" (Take-3) - Chair: Natasha Noy - Panelists: Carlos Rueda, Paul Alexander, John Graybeal, Mike Dean, StephenGranite, AlexGarcia, Ken Baclawski - ConferenceCall_2009_07_30
- 2010_02_19 - Friday: OOR Panel Discussion: "Coordinating our Open Ontology Repository Software Development" - Chair: Mike Dean - Panelists: Jim Chatigny, Michael Grüninger, Ken Baclawski, Natasha Noy - OOR/ConferenceCall_2010_02_19
- 2010_04_01 - Thursday: Joint OOR-Ontolog Panel Session: "OOR Use Cases - Take-3" - Chair: Ken Baclawski & Todd Schneider - Panelists: Todd Schneider, Matthew Hettinger, Ken Baclawski and Máximo Gurméndez - ConferenceCall_2010_04_01
- 2010_09_10 - Friday: Joint SIO-OOR-Ontolog Panel Discussion: "Common Logic (CL) Support for OOR" - Chair: John F. Sowa - Panelists: JohnBateman-TillMossakowski, Michael Grüninger, Cameron Ross, Adam Pease, Pat Hayes - ConferenceCall_2010_09_10
- 2010_09_17 - Friday: OOR Panel Discussion - "Getting OOR Development Going - Take-IV" Workshop - Co-chairs: Todd Schneider & Michael Grüninger - Panelists: Todd Schneider, Mike Dean, Natasha Noy, Immanuel Normann, Ken Baclawski, Michael Grüninger - OOR/ConferenceCall_2010_09_17
-
- 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
- 2011_09_13 - Tuesday: Joint NCBO-OOR Team Meeting - "Kicking-off the Next Phase of Collaboration" - Co-chairs: Ray Fergerson & Peter P. Yim - OOR/ConferenceCall_2011_09_13
- 2011_11_29 - Tuesday: Joint NCBO-OOR Session - "OOR Architecture & API Workshop-IX: BioPortal & OOR Synergies" - Co-chairs: Ken Baclawski & Todd Schneider - Discussant: Ray Fergerson - OOR/ConferenceCall_2011_11_29
-
- 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
- 2011_03_04 - Friday: OOR "Architecture & API Specification Development Workshop-I" - Co-chairs: Ken Baclawski & Todd Schneider - OOR/ConferenceCall_2011_03_04
- 2011_03_11 - Friday: OOR - "Architecture & API Specification Development Workshop-II" - Co-chairs: Ken Baclawski & Todd Schneider - OOR/ConferenceCall_2011_03_11
- 2011_03_25 - Friday: OOR - "Architecture & API Specification Development Workshop-III" - Co-chairs: Ken Baclawski & Todd Schneider - OOR/ConferenceCall_2011_03_25
- 2011_04_22 - Friday: OOR - "Architecture & API Specification Development Workshop-IV" - Co-chairs: Ken Baclawski & Todd Schneider - OOR/ConferenceCall_2011_04_22
- 2011_05_20 - Friday: OOR - "Architecture & API Specification Development Workshop-V" - Co-chairs: Ken Baclawski & Todd Schneider - OOR/ConferenceCall_2011_05_20
- 2011_06_17 - Friday: OOR - "Architecture & API Specification Development Workshop-VI" - Co-chairs: Ken Baclawski & Todd Schneider - OOR/ConferenceCall_2011_06_17
- 2011_09_20 - Tuesday: OOR - "Architecture & API Specification Development Workshop-VII" - Co-chairs: Ken Baclawski & Todd Schneider - OOR/ConferenceCall_2011_09_20
- 2011_10_11 - Tuesday: OOR - "Architecture & API Specification Development Workshop-VIII" - Co-chairs: Ken Baclawski & Todd Schneider - OOR/ConferenceCall_2011_10_11
- 2011_11_29 - Tuesday: Joint NCBO-OOR Session - "OOR Architecture & API Workshop-IX: BioPortal & OOR Synergies" - Co-chairs: Ken Baclawski & Todd Schneider - Discussant: Ray Fergerson - OOR/ConferenceCall_2011_11_29
- 2012_01_31 - Tuesday: OOR Architecture & API Workshop-X - Co-chairs: Ken Baclawski & Todd Schneider - OOR/ConferenceCall_2012_01_31
-
- 2011_11_08 - Tuesday: "Getting OOR Development Going - Take-V" Workshop - Chair: Mike Dean - "Getting OOR Development going, on Eclipse?" - OOR/ConferenceCall_2011_11_08
- 2011_11_22 - Tuesday: "Getting OOR Development Going - Take-VI" Workshop - Chair: Mike Dean - OOR/ConferenceCall_2011_11_22
- 2012_02_28 - Tuesday: "Getting OOR Development Going - Take-VII" Workshop - Chair: Ken Baclawski - OOR/ConferenceCall_2012_02_28
-
- 2011_03_18 - Friday: OOR Metadata Workshop-I - Chair: Michael Grüninger - OOR/ConferenceCall_2011_03_18
- 2011_05_13 - Friday: OOR Metadata Workshop-II - Chair: Michael Grüninger - OOR/ConferenceCall_2011_05_13
- 2011_05_27 - Friday: OOR Metadata Workshop-III - Chair: Michael Grüninger - OOR/ConferenceCall_2011_05_27
- 2011_10_18 - Friday: OOR Metadata Workshop-IV - Chair: Michael Grüninger - OOR/ConferenceCall_2011_10_18
- 2012_01_17 - Tuesday: OOR Metadata Workshop-V - "OOR Metadata Workshop-V: Crosswalk between OMV & CTS2, and other relevant work by the NIH/NCI-ORWG" Chair: Michael Grüninger - Panelists: Harold Solbrig, SherriDeCoronado, Brian Davis - OOR/ConferenceCall_2012_01_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
- 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
- 2011_12_15 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-3: "ISO/IEC 24707 Common Logic and IKL" - Co-chairs: Michael Grüninger & John Bateman - ConferenceCall_2011_12_15
- OntologySummit2008 homepage
- OntologySummit2008_Communique
- OntologySummit2008/FaceToFaceAgenda & Proceedings
- The OOR Project Presentation (delivered at the Ontology Summit 2008 face-to-face workshop)
- [ ontology-summit ] discussion archives - http://ontolog.cim3.net/forum/ontology-summit/2008-01/ (~5 months exchanges starting from Jan-2008)
- Our key content pages:
- OpenOntologyRepository_Scope
- OpenOntologyRepository_Organization
- OpenOntologyRepository_Process
- OpenOntologyRepository_Policy
- OpenOntologyRepository_IPR
- OpenOntologyRepository_Requirement
- OpenOntologyRepository_UseCases
- OpenOntologyRepository_Architecture
- OpenOntologyRepository_Approach
- OpenOntologyRepository_Roadmap
- OpenOntologyRepository_Plan
- OpenOntologyRepository_Funding
- OpenOntologyRepository_ResearchIssues
- OpenOntologyRepository_ResearchActivity
- OpenOntologyRepository_Development
- OpenOntologyRepository_Metadata
- OOR/ActiveMemberContribution
- OOR Project site at SemWebCentral - http://oor.semwebcentral.org
- Public instances of OOR - http://sandbox.oor.net/ontologies ...
- OOR_SandBox - http://sandbox.oor.net/ (also, canonically: http://oor-03.cim3.net )
- SOCoP_OOR - http://socop.oor.net/ (also, canonically: http://oor-04.cim3.net )
- OOR_DevBox - http://dev.oor.net/ (also, canonically: http://oor-05.cim3.net )
- OOR_TestBox - ( http://test.oor.net/ - http://oor-06.cim3.net ) - coming!
- (previously http://oor-01.cim3.net/ontologies running BioPortal v2.6 code is now being retired.)
- NCBO - BioPortal
- BioPortal's [bioontology-support] mailing list - see: https://mailman.stanford.edu/mailman/listinfo/bioontology-support
- NCBO-OOR development documentation - http://www.bioontology.org/wiki/index.php/NCBO-OOR_Development