OpenOntologyRepository: OOR Development Workshop-VII - Tue 2012_02_28 (34UX)
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. (35LD)
Topic: "Getting OOR Development Going - Take VII" (34UY)
Session Chair: KenBaclawski (35LF)
Conference Call Details: (35LG)
- Date: Tuesday, 28-Feb-2012 (35LH)
- Start Time: 8:30am PST / 11:30am EST / 5:30pm CET / 16:30 UTC (35LI)
- ref: World Clock (35LJ)
- Expected Call Duration: ~1.5 hours (35LK)
- Dial-in: (35LL)
- In-session chat-workspace url: http://webconf.soaphub.org/conf/room/oor_20120228 (35MI)
- Shared-screen support (VNC session), if applicable, will be started 5 minutes before the call at: http://vnc2.cim3.net:5800/ (35LQ)
- view-only password: "ontolog" (35LR)
- if you plan to be logging into this shared-screen option (which the speaker may be navigating), and you are not familiar with the process, please try to call in 5 minutes before the start of the session so that we can work out the connection logistics. Help on this will generally not be available once the presentation starts. (35LS)
- people behind corporate firewalls may have difficulty accessing this. If that is the case, please point your browser directly to the [ slides] (where applicable) and running them locally. The speaker(s) will prompt you to advance the slides during the talk. (35LT)
- 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.) (35LU)
- 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 (35LV)
- 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. (35LW)
Attendees (35LX)
- Attended: (35LY)
- Expecting: (35M3)
- (35M4)
- ... 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. ... (35M5)
- Regrets: (35M6)
Agenda Ideas: (35M9)
please insert any additional items below (along with your name for follow-up purposes) (35MA)
- OOR: sandbox, dev-, test-, socop-, instances - quick status update (35MB)
- (for the next call) differentiating the various instances (35MO)
- MichaelGruninger: [announce] the Bremen group's plan to use a set of student projects to implement some OOR functionality (35MN)
- comparing notes on the first attempts to add code/tab to the BioPortal codebase (35MC)
- Getting us to a stage when we can run a OOR-production box (35MD)
- planning and coordination on upcoming OOR events (35ME)
- ... (for this or next call) discussion: justifying "oor.net" (35MF)
Agenda & Proceedings (35MG)
- audio recording of the session [ 0:46:51 ; mp3 ; 5.36 MB ] (35MQ)
- chat-transcript of this session (35MR)
1. Meeting called to order: (35MS)
- KenBaclawski takes the chair and welcome everyone (35MT)
- review and adopt agenda (35MU)
- PeterYim volunteered to take notes (35MV)
2. Roll Call: (35MW)
- welcome and intro of new member(s) (if applicable) (35MY)
3. Status Review and Discussion: (35MZ)
- Review and update our "Most Critical Task(s) At Hand" list ...(we will skip this stock agenda item at today's call.) (35N0)
4. Key items for review and discussion today: (35N2)
- OOR: sandbox- (oor-03), socop- (oor-04), dev- (oor-05), test- (oor-06), instances - quick status update (35N3)
- everyone should test with oor-06 (35QP)
- oor-01 is obsolete [action: PeterYim will arrange to bring it down] (35QQ)
- Michael will make the COLORE repository at: http://code.google.com/p/colore/source/browse/ to be accessible as http://colore.oor.net - [action: PeterYim to arrange] (35QR)
- (for the next call) differentiating the various instances (35N4)
- MichaelGruninger: [announce] the Bremen group's plan to use a set of student projects to implement some OOR functionality (35N5)
- 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. (35QU)
- OntoIOp project will look towards working with OOR as discussed in this ISO WG's recent (2012.02.23) Berlin meeting. (35QV)
- comparing notes on the first attempts to add code/tab to the BioPortal codebase (35N6)
- KenBaclawski - 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) (35QW)
- see: http://oor-03.cim3.net/ - within the "Find an ontology" box - see: "Browse Ontologies > Experiment" (35QX)
- Ken: this is a bottleneck for anyone to put up a new tab [Ken will make a suggestion to the NCBO folks] (35QY)
- KenBaclawski - 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) (35QW)
- Getting us to a stage when we can run a OOR-production box (35N7)
- planning and coordination on upcoming OOR events (35N8)
- ... (for this or next call) discussion: justifying "oor.net" (35N9)
... Notes below are from previous meeting(s), and will be updated as this meeting progresses. (35NA)
- OOR: sandbox, devbox, socop-instance status update (35NB)
- ref. http://oor-03.cim3.net is the current OOR_SandBox (35NC)
- <oor-04.cim3.net> is up (still on CANTOR) and accessible as: http://socop.oor.net (35ND)
- Peter: WITTGENSTEIN is now up, running CentOS 6.2, now testing/debugging KVM-based virtualization (35NE)
- 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 - MichaelGruninger will take a lead on this!] (35NL)
- 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)!] (35QT)
- planning and coordination on upcoming OOR events (35NM)
- Mar-6 team meeting (35NN)
- re-scheduling metadata (VI?) session: with MikeBennett on financial metadata - some time in Mar-2012 (say, Mar-13) - [MichaelGruninger] (35NO)
- OOR Architecture & API Workshop-XII now scheduled for (Mar-20) - Ken & Todd (35NP)
- next Content workshop ...? (35NQ)
- ... lining up more? (35NR)
- 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) (35NS)
- Getting us to a stage when we can run a OOR-production box ... (item skipped; discussion deferred) (35NT)
5. Funding progress: (35NU)
6. Any Other Business: (35NV)
7. Action items: (35NW)
8. Schedule Next Meeting & Adjourn: (35NX)
- Next Meetings: (35NY)
- 2012_03_06 - next Regular OOR Team meeting - first Tuesday of the month - OOR/ConferenceCall_2012_03_06 (35NZ)
- next Metadata workshop (VI) on Tue 2012.03.13 (35O0)
- we might swap the two dates - Mar-6 & Mar-13 ... [MichaelGruninger will confirm ASAP] (35QS)
- next Architecture API workshop (XI) on Tue 2012.03.20 (35O1)
- Call adjourned at: 9:18 am PST (35O2)
-- notes taken by: PeterYim / 2012.02.28-9:19am PST All participants, please review and edit to enhance accuracy and granularity of the documented proceedings. (35O3)
Resources (35O4)
- homepage - OpenOntologyRepository - http://OpenOntologyRepository.org (35O5)
- 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. (35O6)
- "Ontology Repository" Definition - "An ontology repository is a facility where ontologies and related information artifacts can be stored, retrieved and managed" (35O7)
- Team mailing list: (35O8)
- OOR-Team discussion: [ oor-forum ]''' message archives - http://ontolog.cim3.net/forum/oor-forum/ (35O9)
- OOR-Users discussion and support: [ oor-users ]''' message archives - http://ontolog.cim3.net/forum/oor-users/ (35OA)
- Developers mailing list: [ oor-dev ] message archives - http://ontolog.cim3.net/forum/oor-dev/ (35OB)
- proceedings of our previous meetings, panel discussions and workshops (35OC)
- the Joint OOR-OntologySummit2008 Panel Discussions: (35OD)
- 2008_02_28 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "Ontology Registry and Repository Technology & Infrastructure Landscape" - Co-chairs: LeoObrst & FrankOlken; Panelists: BruceBargmeyer, MikeDean, MarkMusen, FarrukhNajmi & PeterYim - ConferenceCall_2008_02_28 (35OE)
- 2008_03_27 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "An Open Ontology Repository: Rationale, Expectations & Requirements - Session-1" - Chair: LeoObrst & FabianNeuhaus; Panelists: WilliamBug, EvanWallace, JohnLMcCarthy, KenBaclawski, PeterBenson & RexBrooks - ConferenceCall_2008_03_27 (35OF)
- 2008_04_03 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "An Open Ontology Repository: Rationale, Expectations & Requirements - Session-2" - Chair: LeoObrst & FabianNeuhaus; Panelists: DougLenat, DekeSmith, MarciaZeng, DeniseBedford, PatHayes, MalaMehrotra & RobRaskin - ConferenceCall_2008_04_03 (35OG)
- 2008_04_10 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "Developing an Ontology of Ontologies for OOR" - Co-chairs: BarrySmith & MichaelGruninger; Panelists: MichaelGruninger, PeterHaase, NatashaNoy & ElisaKendall - ConferenceCall_2008_04_10 (35OH)
- the OOR Development panel sessions: (35OI)
- 2008_08_22 - Friday: OOR Panel Discussion: "Getting OOR Development Off the Ground: Identifying Synergies & Gaps" (Take-1) - Chair: LeoObrst; Panelists: MikeDean, MarkMusen, LiDing, BruceBargmeyer & BillAndersen - ConferenceCall_2008_08_22 (35OJ)
- 2009_02_19 - Thursday: Joint Ontolog-OOR Panel Discussion: "Getting OOR Development Off the Ground (Take-2): the work begins" - Chair: ToddSchneider; Panelists: MarkMusen, NatashaNoy, MikeDean, PaulBuitelaar / AndreasHarth, MathieuDaquin, KenBaclawski, MichaelGruninger - ConferenceCall_2009_02_19 (35OK)
- 2009_07_16 - Thursday: Joint Ontolog-OOR Panel Discussion: "Integrated tools for ontology development and management: A field guide to the Stanford technology" - Chair: MarkMusen - Panelists: TaniaTudorache, TimRedmond, NatashaNoy - ConferenceCall_2009_07_16 (35OL)
- 2009_07_30 - Thursday: Joint Ontolog-OOR Panel Discussion: "BioPortal and related Ontology Repository Implementations and Development" (Take-3) - Chair: NatashaNoy - Panelists: CarlosRueda, PaulAlexander, JohnGraybeal, MikeDean, StephenGranite, AlexGarcia, KenBaclawski - ConferenceCall_2009_07_30 (35OM)
- 2010_02_19 - Friday: OOR Panel Discussion: "Coordinating our Open Ontology Repository Software Development" - Chair: MikeDean - Panelists: JimChatigny, MichaelGruninger, KenBaclawski, NatashaNoy - OOR/ConferenceCall_2010_02_19 (35ON)
- 2010_04_01 - Thursday: Joint OOR-Ontolog Panel Session: "OOR Use Cases - Take-3" - Chair: KenBaclawski & ToddSchneider - Panelists: ToddSchneider, MatthewHettinger, KenBaclawski and MaximoGurmendez - ConferenceCall_2010_04_01 (35OO)
- 2010_09_10 - Friday: Joint SIO-OOR-Ontolog Panel Discussion: "Common Logic (CL) Support for OOR" - Chair: JohnSowa - Panelists: JohnBateman-TillMossakowski, MichaelGruninger, CameronRoss, AdamPease, PatHayes - ConferenceCall_2010_09_10 (35OP)
- 2010_09_17 - Friday: OOR Panel Discussion - "Getting OOR Development Going - Take-IV" Workshop - Co-chairs: ToddSchneider & MichaelGruninger - Panelists: ToddSchneider, MikeDean, NatashaNoy, ImmanuelNormann, KenBaclawski, MichaelGruninger - OOR/ConferenceCall_2010_09_17 (35OQ)
- (35OR)
- 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 (35OS)
- 2011_09_13 - Tuesday: Joint NCBO-OOR Team Meeting - "Kicking-off the Next Phase of Collaboration" - Co-chairs: RayFergerson & PeterYim - OOR/ConferenceCall_2011_09_13 (35OT)
- 2011_11_29 - Tuesday: Joint NCBO-OOR Session - "OOR Architecture & API Workshop-IX: BioPortal & OOR Synergies" - Co-chairs: KenBaclawski & ToddSchneider - Discussant: RayFergerson - OOR/ConferenceCall_2011_11_29 (35OU)
- (35OV)
- 2010_11_19 - Friday: OOR Panel Discussion - "(Post-BioPortal fork) OOR Architecture and API - Take-II" - Co-chairs: KenBaclawski & MichaelGruninger - Panelists: KenBaclawski+ToddSchneider, AldoGangemi+AlessandroAdamou, JouniTuominen+KimViljanen, EricChan - OOR/ConferenceCall_2010_11_19 (35OW)
- 2011_03_04 - Friday: OOR "Architecture & API Specification Development Workshop-I" - Co-chairs: KenBaclawski & ToddSchneider - OOR/ConferenceCall_2011_03_04 (35OX)
- 2011_03_11 - Friday: OOR - "Architecture & API Specification Development Workshop-II" - Co-chairs: KenBaclawski & ToddSchneider - OOR/ConferenceCall_2011_03_11 (35OY)
- 2011_03_25 - Friday: OOR - "Architecture & API Specification Development Workshop-III" - Co-chairs: KenBaclawski & ToddSchneider - OOR/ConferenceCall_2011_03_25 (35OZ)
- 2011_04_22 - Friday: OOR - "Architecture & API Specification Development Workshop-IV" - Co-chairs: KenBaclawski & ToddSchneider - OOR/ConferenceCall_2011_04_22 (35P0)
- 2011_05_20 - Friday: OOR - "Architecture & API Specification Development Workshop-V" - Co-chairs: KenBaclawski & ToddSchneider - OOR/ConferenceCall_2011_05_20 (35P1)
- 2011_06_17 - Friday: OOR - "Architecture & API Specification Development Workshop-VI" - Co-chairs: KenBaclawski & ToddSchneider - OOR/ConferenceCall_2011_06_17 (35P2)
- 2011_09_20 - Tuesday: OOR - "Architecture & API Specification Development Workshop-VII" - Co-chairs: KenBaclawski & ToddSchneider - OOR/ConferenceCall_2011_09_20 (35P3)
- 2011_10_11 - Tuesday: OOR - "Architecture & API Specification Development Workshop-VIII" - Co-chairs: KenBaclawski & ToddSchneider - OOR/ConferenceCall_2011_10_11 (35P4)
- 2011_11_29 - Tuesday: Joint NCBO-OOR Session - "OOR Architecture & API Workshop-IX: BioPortal & OOR Synergies" - Co-chairs: KenBaclawski & ToddSchneider - Discussant: RayFergerson - OOR/ConferenceCall_2011_11_29 (35P5)
- 2012_01_31 - Tuesday: OOR Architecture & API Workshop-X - Co-chairs: KenBaclawski & ToddSchneider - OOR/ConferenceCall_2012_01_31 (35P6)
- (35P7)
- 2011_11_08 - Tuesday: "Getting OOR Development Going - Take-V" Workshop - Chair: MikeDean - "Getting OOR Development going, on Eclipse?" - OOR/ConferenceCall_2011_11_08 (35P8)
- 2011_11_22 - Tuesday: "Getting OOR Development Going - Take-VI" Workshop - Chair: MikeDean - OOR/ConferenceCall_2011_11_22 (35P9)
- 2012_02_28 - Tuesday: "Getting OOR Development Going - Take-VII" Workshop - Chair: KenBaclawski - OOR/ConferenceCall_2012_02_28 (35PA)
- (35PB)
- 2011_03_18 - Friday: OOR Metadata Workshop-I - Chair: MichaelGruninger - OOR/ConferenceCall_2011_03_18 (35PC)
- 2011_05_13 - Friday: OOR Metadata Workshop-II - Chair: MichaelGruninger - OOR/ConferenceCall_2011_05_13 (35PD)
- 2011_05_27 - Friday: OOR Metadata Workshop-III - Chair: MichaelGruninger - OOR/ConferenceCall_2011_05_27 (35PE)
- 2011_10_18 - Friday: OOR Metadata Workshop-IV - Chair: MichaelGruninger - OOR/ConferenceCall_2011_10_18 (35PF)
- 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: MichaelGruninger - Panelists: HaroldSolbrig, SherriDeCoronado, BrianDavis - OOR/ConferenceCall_2012_01_17 (35PG)
- the OOR-IPR mini-series: (35PH)
- 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: GeorgeStrawn - Chair: PeterYim - Panelists: JamieClark, JohnWilbanks, BrucePerens - ConferenceCall_2010_09_09 (35PI)
- 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: MarkMusen - Panelists: CameronRoss, AlanRector, JohnSowa, BrucePerens, JohnWilbanks, PeterYim - ConferenceCall_2010_09_16 (35PJ)
- 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: LeoObrst - Panelists: PeterYim, MikeDean, BrucePerens, JamieClark - ConferenceCall_2010_09_30 (35PK)
- the Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series: (35PL)
- 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: JohnBateman & MichaelGruninger - ConferenceCall_2011_10_20 (35PM)
- 2011_11_03 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-2: Invited Speaker: ElisaKendall on "Ontology-Related Metadata Standards" - Co-chairs: MichaelGruninger & JohnBateman - ConferenceCall_2011_11_03 (35PN)
- 2011_12_15 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-3: "ISO/IEC 24707 Common Logic and IKL" - Co-chairs: MichaelGruninger & JohnBateman - ConferenceCall_2011_12_15 (35PO)
- OntologySummit2008 homepage (35PP)
- OntologySummit2008_Communique (35PQ)
- OntologySummit2008/FaceToFaceAgenda & Proceedings (35PR)
- The OOR Project Presentation (delivered at the OntologySummit2008 face-to-face workshop) (35PS)
- [ ontology-summit ] discussion archives - http://ontolog.cim3.net/forum/ontology-summit/2008-01/ (~5 months exchanges starting from Jan-2008) (35PT)
- Our key content pages: (35PU)
- OpenOntologyRepository_Scope (35PV)
- OpenOntologyRepository_Organization (35PW)
- OpenOntologyRepository_Process (35PX)
- OpenOntologyRepository_Policy (35PY)
- OpenOntologyRepository_IPR (35PZ)
- OpenOntologyRepository_Requirement (35Q0)
- OpenOntologyRepository_UseCases (35Q1)
- OpenOntologyRepository_Architecture (35Q2)
- OpenOntologyRepository_Approach (35Q3)
- OpenOntologyRepository_Roadmap (35Q4)
- OpenOntologyRepository_Plan (35Q5)
- OpenOntologyRepository_Funding (35Q6)
- OpenOntologyRepository_ResearchIssues (35Q7)
- OpenOntologyRepository_ResearchActivity (35Q8)
- OpenOntologyRepository_Development (35Q9)
- OpenOntologyRepository_Metadata (35QA)
- OOR/ActiveMemberContribution (35QB)
- OOR Project site at SemWebCentral - http://oor.semwebcentral.org (35QC)
- Public instances of OOR - http://sandbox.oor.net/ontologies ... (35QD)
- OOR_SandBox - http://sandbox.oor.net/ (also, canonically: http://oor-03.cim3.net ) (35QE)
- SOCoP_OOR - http://socop.oor.net/ (also, canonically: http://oor-04.cim3.net ) (35QF)
- OOR_DevBox - http://dev.oor.net/ (also, canonically: http://oor-05.cim3.net ) (35QG)
- OOR_TestBox - ( http://test.oor.net/ - http://oor-06.cim3.net ) - coming! (35QH)
- (previously http://oor-01.cim3.net/ontologies running BioPortal v2.6 code is now being retired.) (35QI)
- NCBO - BioPortal (35QJ)
- BioPortal's [bioontology-support] mailing list - see: https://mailman.stanford.edu/mailman/listinfo/bioontology-support (35QK)
- NCBO-OOR development documentation - http://www.bioontology.org/wiki/index.php/NCBO-OOR_Development (35QL)