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= [[OpenOntologyRepository]]: OOR Team Conference Call - Tue 2012_04_03 =
= [[OpenOntologyRepository]]: Metadata Workshop-VII - Tue 2012_04_24 =


This is a regular OOR Team meeting. ... ''please refer also to proceedings from the last team meeting at [[OOR/ConferenceCall_2012_03_13]]''  
Topic: '''OOR Metadata Workshop-VII: Metadata in Ontology Mapping'''
 
Session Chair: '''Professor MichaelGruninger''' (University of Toronto)
 
Panelists:
 
* '''Dr. [[OliverKutz|Oliver Kutz]] / Dr. [[ChristophLange|Christoph Lange]] / Dr. TillMossakowski''' (University of Bremen, Germany) - "Ontology Links in the Distributed Ontology Language (DOL)" [ [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/OOR_links-in-DOL--OliverKutz-ChristophLange-TillMossakowski_20120424b.pdf slides] ]
* '''Dr. JeromeEuzenat''' (INRIA & LIG, France) - "Ontology alignment metadata" ... [ [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/OOR_ontology-alignment-metadata--JeromeEuzenat_20120424.pdf slides] ]
* '''Dr. NatashaNoy''' (Stanford University, USA) - "Mapping repository in BioPortal" ... [ [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/OOR_Mapping-Metadata--NatashaNoy_20120424.pdf slides] ]
 
[http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/ Archives]:
 
* '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A1I Abstract]'''
* '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A24 Agenda & Proceedings]'''
* '''Prepared presentation material (slides)''' can be accessed by clicking on each of the [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/ title links] below:
** '''[ 0-Chair (no slides) ] . [ [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/OOR_links-in-DOL--OliverKutz-ChristophLange-TillMossakowski_20120424b.pdf 1-Kutz-Lange-Mossakowski] ] . [ [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/OOR_ontology-alignment-metadata--JeromeEuzenat_20120424.pdf 2-Euzenat] ] . [ [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/OOR_Mapping-Metadata--NatashaNoy_20120424.pdf 3-Noy] ]'''
* '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A1N References]'''
* [ audio recording of the session] ... ''(coming!)''
* '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A2B Transcript of the online chat session]''' during the panel discussion ... ''(raw transcript is now online; cleaned-up version coming!)''
* '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A2O Additional Resources]'''  


=== [[MeetingsCalls|Conference Call]] Details  ===
=== [[MeetingsCalls|Conference Call]] Details  ===


* Date: '''Tuesday, 3-Apr-2012'''  
* Date: '''Tuesday, 24-April-2012'''  
* Start Time: 8:30am PDT / 11:30am EDT / 5:30pm CEST / 4:30pm GMT / 15:30 UTC  
* Start Time: 8:30am PDT / 11:30am EDT / 5:30pm CEST / 15:30 UTC  
** ref: [http://www.timeanddate.com/worldclock/fixedtime.html?month=4&day=3&year=2012&hour=8&min=30&sec=0&p1=224 World Clock]  
** ref: [http://www.timeanddate.com/worldclock/fixedtime.html?month=4&day=24&year=2012&hour=8&min=30&sec=0&p1=224 World Clock]  
* Expected Call Duration: 1.0~1.5 hours  
* Expected Call Duration: 1.5~2.0 hours  


* Dial-in:  
* Dial-in:  
** '''Phone (US): +1 (206) 402-0100''' ''(long distance cost may apply)''
** '''Phone (US): +1 (206) 402-0100''' (long distance cost will apply)  
*** ... [ backup nbr: (415) 671-4335 ]
*** ... ''backup nbr (US): +1 (415) 671-4335''
** '''Skype: joinconference''' ... ''free-of-charge if you connect through skype from your computer/device with an Internet connection)''
** '''Skype: joinconference''' ... generally free-of-charge, when connecting from your computer)  
** when prompted enter '''PIN: 141184#'''  
** when prompted enter '''PIN: 141184#'''  


* '''Shared-screen support''' (VNC session), if applicable, will be started 5 minutes before the call at: http://vnc2.cim3.net:5800/  
* '''Shared-screen support'''  
** view-only password: "ontolog"  
** VNC session: http://vnc2.cim3.net:5800/  
** 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.  
*** view-only password: "ontolog"  
** 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.  
*** 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.  
** people behind corporate firewalls may have difficulty accessing this. If that is the case, please download the '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A06 slides above]''' (where applicable) and running them locally. The speaker(s) will prompt you to advance the slides during the talk.  
 
* '''In-session chat'''-room url: http://webconf.soaphub.org/conf/room/oor_20120424
** instructions: once you got access to the page, click on the "settings" button, and identify yourself (by modifying the Name field from "anonymous" to your real name, like "JaneDoe").
** You can indicate that you want to ask a question verbally by clicking on the "hand" button, and wait for the moderator to call on you; or, type and send your question into the chat window at the bottom of the screen.
** thanks to the soaphub.org folks, one can now use a jabber/xmpp client (e.g. gtalk) to join this chatroom. Just add the room as a buddy - (in our case here) oor_20120424@soaphub.org ... Handy for mobile devices!


* '''In-session chat'''-room url: http://webconf.soaphub.org/conf/room/oor_20120403
* '''Discussions and Q & A:'''
** Nominally, when a presentation is in progress, the moderator will mute everyone, except for the speaker.
** '''To un-mute, press "*7"''' ... '''To mute, press "*6"''' (please mute your phone, especially if you are in a noisy surrounding, or if you are introducing noise, echoes, etc. into the conference line.)
** we will usually save all questions and discussions till after all presentations are through. You are encouraged to jot down questions onto the chat-area in the mean time (that way, they get documented; and you might even get some answers in the interim, through the chat.)
** During the Q&A / discussion segment (when everyone is muted), '''If you want to speak''' or have questions or remarks to make, '''please raise your hand''' (virtually) '''by clicking on the "hand button"''' (lower right) on the chat session page. You may speak when acknowledged by the session moderator (again, press "*7" on your phone to un-mute). ''Test your voice and introduce yourself first before proceeding with your remarks, please.'' (Please remember to click on the "hand button" again (to lower your hand) and press "*6" on your phone to mute yourself after you are done speaking.)


* '''RSVP''' '' to [mailto:peter.yim@cim3.com 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 review our Virtual Session Tips and Ground Rules - see: [[VirtualSpeakerSessionTips]]  


* 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_04_03
* 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_04_24


* 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 [[WikiHomePage#Intellectual_Property_Rights_.28IPR.29_Policy|our prevailing open IPR policy]].  
* 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 [[WikiHomePage#Intellectual_Property_Rights_.28IPR.29_Policy|our prevailing open IPR policy]].  
* '''RSVP''' '' to [mailto:peter.yim@cim3.com 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.)


== Attendees  ==
== Attendees  ==


* Attended:  
* Attended:  
** [[MichaelGruninger|Michael Grüninger]] (chair)
** [[JeromeEuzenat|Jerome Euzenat]]
** [[PeterYim|Peter P. Yim]]
** [[User:KennethBaclawski|Ken Baclawski]]  
** [[User:KennethBaclawski|Ken Baclawski]]  
** [[MichaelGruninger|Michael Grüninger]]
** [[PeterYim|Peter P. Yim]] (chair)
** [[TillMossakowski|Till Mossakowski]]  
** [[TillMossakowski|Till Mossakowski]]  
** [[OliverKutz|Oliver Kutz]]
** [[ChristophLange|Christoph Lange]]
** Natasha Noy
** [[MikeDean|Mike Dean]]
** [[ChristopherSpottiswoode|Christopher Spottiswoode]]
** [[DaliaVaranka|Dalia Varanka]]
** [[TerryLongstreth|Terry Longstreth]]
** [[ToddSchneider|Todd Schneider]]
** [[TaraAthan|Tara Athan]]
** [[JeffreyWallk|Jeffrey Wallk]]
** [[VictorAgroskin|Victor Agroskin]]
** [[AliHashemi|Ali Hashemi]]
** [[FrankOlken|Frank Olken]]
** [[MikeBennett|Mike Bennett]]
** PavithraKenjige...
** [[SeanMcBride]]


* Expecting:  
* Expecting:  
** [[DanielMekonnen|Daniel Mekonnen]]
*   
*   
** ... ''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.'' ...  
** ... ''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:  
* Regrets:  
** [[ToddSchneider|Todd Schneider]]
** [[MikeDean|Mike Dean]]
** [[TimDarr|Tim Darr]]
** ...  
** ...  


== Agenda Ideas ==
== Abstract ==


''please insert any additional items below (along with your name for follow-up purposes)''  
Topic: '''OOR Metadata Workshop-VII: Metadata in Ontology Mapping'''  


* postmortem of the last couple of workshops (Architecture-API-XI & Ontohub)
by: [[MichaelGruninger|Michael Gr&uuml;ninger]]  
** Architecture-API-XI - [[OOR/ConferenceCall_2012_03_20]]
** Ontohub - [[OOR/ConferenceCall_2012_03_27]]
* OOR: sandbox, devbox, test-instance, socop, colore, new ncbo-appliance, ... status update
* previous action item status review
* planning and coordination on upcoming OOR events
* OOR presence at the [[OntologySummit2012_Symposium]]  
* Member activities updates
* action planning for "content drive" (getting people to upload ontologies)
* Getting us to a stage when we can run a OOR-production box
* ...


== Agenda & Proceedings  ==
The OOR Metadata Workshop series is devoted to exploring existing and proposed approaches to the specification of metadata for ontologies, particularly in the context of ontology repositories.


'''[http://ontolog.cim3.net/file/work/OpenOntologyRepository/MeetingsCalls/ Archives]:'''
The workshop today will focus on ontology metadata for ontology mappings.  


* [http://ontolog.cim3.net/file/work/OpenOntologyRepository/MeetingsCalls/OOR-team-conf-call_20120403b.mp3 audio recording of the session] [ 0:29:53 ; mp3 ; 3.42 MB ]
== References  ==
* [http://ontolog.cim3.net/file/work/OpenOntologyRepository/MeetingsCalls/chat-transcript_oor-team_20120403b.txt chat-transcript of this session]


1. Meeting called to order:  
* Proceedings of '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_03_18 OOR Metadata Workshop-I]''' and MichaelGruninger's opening [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/metafuture--MichaelGruninger_20110318.pdf slides] from that session
* Proceedings of '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_05_13 OOR Metadata Workshop-II]'''
* Proceedings of '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_05_27 OOR Metadata Workshop-III]'''
* Proceedings of '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_10_18 OOR Metadata Workshop-IV]'''
* Proceedings of '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_17 OOR Metadata Workshop-V]'''
* Proceedings of '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_03_06 OOR Metadata Workshop-VI]'''
* Proceedings of '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24 OOR Metadata Workshop-VII]''' ''(this session)''
* Metadata for Ontologies - [[OntologySummit2008_Communique|from the [[OntologySummit2008_Communique]]]]
* Metadata requirement - [[OpenOntologyRepository_IPR|as stipulated in the OOR IPR Policy]]
* Ontology Metadata Vocabulary - [[OMV]]
** Brief Description of OMV (with diagram) - http://omv2.sourceforge.net/description.html
** "OMV - Ontology Metadata Vocabulary for the SemanticWeb" - [http://ontolog.cim3.net/file/resource/OOR/OMV/OMV-Reportv2.4.1.pdf OMV v2.4.1 (final)] (Mar-2009)
* The Joint [[OpenOntologyRepository]]-OntologySummit2008 Panel Discussion Session - ConferenceCall_2008_04_10
** Presentation by [[PeterHaase|Peter Haase]] "[[ConferenceCall_2008_04_10|The OMV Ontology Metadata Vocabulary]]" at that session
* [[OpenOntologyRepository_Architecture]]
* [[OpenOntologyRepository_UseCases]] - http://www.ccs.neu.edu/home/kenb/ontologies/


* [[PeterYim|Peter P. Yim]] takes the chair and welcome everyone
== Agenda & Proceedings  ==
* [[PeterYim|Peter P. Yim]] volunteered to take notes
* review and adopt agenda
 
2. Roll Call:
 
* see [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_03#nid3912 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''' ... ''(discussion deferred)''
Full proceedings will be made available in our [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A03 archives] after the session.
** ref. http://ontolog.cim3.net/cgi-bin/wiki.pl?OpenOntologyRepository#nid17YH


=== 4. Key items for review and discussion today  ===
1. Meeting called to order - chair: [[MichaelGruninger|Michael Gr&uuml;ninger]]


* '''postmortem of the last couple of workshops (Architecture-API-XI & Ontohub)''' ... ''(discussion deferred)''
2. Introduction of the panel - chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] (~5 min.)
** Architecture-API-XI - [[OOR/ConferenceCall_2012_03_20]]
** Ontohub - [[OOR/ConferenceCall_2012_03_27]]  


* '''OOR status update: sandbox, devbox, test-instance, socop, colore, new ncbo-appliance, ... '''
3. Presentation by the the panelists (~20 min. each) ... [ [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A06 slides] ]
** OOR-01 - (old instance, being retired) re-direct to homepage ... ''(coming!)''
** OOR-02 - ci server
** OOR-03 - sandbox - http://sandbox.oor.net
** OOR-04 - socop - http://socop.oor.net  
** OOR-05 - devbox - http://dev.oor.net
** OOR-06 - test-00 - http://test-00.oor.net
** OOR-07 - new instance - ncbo-applicance-0.5 ... ''(coming!)''
** recruiting and justifying the network of oor.net repository instances
*** ontohub.oor.net -> http://ontohub.informatik.uni-bremen.de/  
**** Till agrees to the above. Peter will implement.


* '''previous action item status review'''
* [[OliverKutz|Oliver Kutz]] / [[ChristophLange|Christoph Lange]] / [[TillMossakowski|Till Mossakowski]] - "Ontology Links in the Distributed Ontology Language (DOL)"
** [action-2012.03.13] Michael will try to get [[MikeBennett|Mike Bennett]] to upload his ontology to OOR
** ''Abstract:'' The Distributed Ontology Language DOL, which is currently being standardised as ISO WD 17347 within the [[OntoIOp]] (Ontology Integration and Interoperability) activity of ISO/TC 37/SC 3, aims at providing a unified framework for
** [action-2012.03.13] Peter trying to get ORNL-DACC and MMI to become part of the federation and run with a __.oor.net cname
*** 
** [action-2012.03.13] [[MikeDean|Mike Dean]] will talk to the SOCoP people about doing a demo at the symposium - ref. Michael's call - http://ontolog.cim3.net/forum/ontology-summit/2012-03/msg00059.html
**** ontologies formalised in heterogeneous logics,
** [action-2012.03.13] Ken will continue to work on implementing "gatekeeping" (and get back with an ETA) so we can move from "sandbox" to "production"
**** modular ontologies,
**** links between ontologies, and  
**** annotation of ontologies.
*** A DOL ontology consists of modules formalised in basic ontology languages, such as OWL or Common Logic, which are serialised in the existing syntaxes of these languages. On top of this, DOL provides a meta-level which allows for expressing heterogeneous ontologies and links between ontologies. This talk focuses on the latter. Links include
**** logical links: (heterogeneous) imports and theory interpretations, as well as
**** alignments, which largely follow the syntax specified by [http://alignapi.gforge.inria.fr/ the Alignment API].
DOL also supports the combination of ontologies via links (technically, these combinations are colimits). Tool support for DOL is provided by the Heterogeneous Tool Set (Hets).
* [[JeromeEuzenat|Jerome Euzenat]] - "Ontology alignment metadata"
** ''Abstract:'' It is very important to be able to publish and address ontology alignments,
i.e., sets of correspondences between entities of two ontologies. Competing
alignments may exists between the same pair of ontologies for many reasons such
as completeness, correctness, or expressiveness. It is worth being able of
identify such alignments. Metadata on alignments, and correspondences, are
helpful to retrieve and to qualify them. Such metadata may be used for
alignment characterisation, provenance, or quality. Metadata for alignments is
not a stabilised area so it is preferable to offer an extensible annotation
framework. I will report on how this is dealt with in the Alignment API and the
Alignment server.
** Additional material:
*** J. Euzenat, P. Shvaiko, Ontology matching, Springer, 2007 - http://book.ontologymatching.org
*** Alignment API and server: http://alignapi.gforge.inria.fr
*** Alignment annotations: http://alignapi.gforge.inria.fr/labels.html


* '''planning and coordination on upcoming OOR events'''
* Natasha Noy - "Mapping repository in BioPortal"
** 2012_04_10 - no meeting; [[OntologySummit2012_Symposium]] on 4/12 & 4/13
** ''Abstract:'' [[BioPortal]], the open ontology repository developed by the National Center for Biomedical Ontology, contains more than 300 ontologies. These ontologies inevitably overlap in content. Thus, in addition to serving as an ontology repository, [[BioPortal]] also provides a repository of mappings between the terms in the ontologies. This repository contains the mappings that the [[BioPortal]] team generates automatically, the mappings created by the users interactively through the [[BioPortal]] user interface, and the mappings that our users have created elsewhere and contributed to BioPortal. The metadata for mappings describes the provenance of the mappings, enables users to comment on and discuss the mappings, and allows users to add extra information such as transformation scripts.
** 2012_04_12~13 - see discussion below on OOR presence at the [[OntologySummit2012_Symposium]]
** 2012_04_17 - no meeting; [[OntologySummit2012_Symposium]] on 4/12 & 4/13
** 2012_04_24 - Tuesday: OOR Metadata Workshop-VII: "Metadata in Ontology Mapping" - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2012_04_24]]
*** candidate panelists: ontoiop, bioportal, ontology mapping community,  
*** ... later, OOR-Metadata panel session on "Federation"
** 2012_05_01 - Tuesday: OOR Project Team Member Conference Call - [[OOR/ConferenceCall_2012_05_01]]  
** next workshops
*** Architecture-API-XII - Tue 2012.05.08
*** Metadata-VIII - will try to fix a date on 4/24 during the "Metadata in Ontology Mapping" session [Michael]
*** OOR-Dev-VIII - ??
*** OOR-Content-II - ??
**** look back at the [[PatCassidy|Pat Cassidy]] + [[DeniseBedford|Denise Bedford]] "OOR-Content-I" session - [[OOR/ConferenceCall_2010_03_12]]  


... ''Notes below are from previous meeting(s), and will be updated as this meeting progresses.''
4. Q & A and Open discussion (~20 min.) ... (ref. [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A0R process above])  


* '''OOR presence at the [[OntologySummit2012_Symposium]]'''
6. Wrap-up: Announcements and Follow-up actions (where applicable) - chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] (~5 min.)  
** OOR presentation? [Todd]
*** Regarding the [[OntologySummit|Ontology Summit]] and OOR, one issue that appears
in many of the summit presentations to date is infrastructure.
OOR being part of said infrastructure (as will be represented
in the communique) will be included.
** semantified summit content access [AliHashemi, [[JieBao|Jie Bao]], [[YingjieLi|Yingjie Li]], PeterYim)
*** aiming to demo something during the [[OntologySummit2012_Symposium]] - summit content on purple semantic mediawiki, slideshare, that makes use of an ontology that will be hosted on OOR  ... ''(being planned!)''
** [action] [[MikeDean|Mike Dean]] will talk to the SOCoP people about doing a demo at the sympoisum - ref. Michael's call - http://ontolog.cim3.net/forum/ontology-summit/2012-03/msg00059.html


'''Member activities updates:''' ... ''(discussion deferred)''
== Transcript of the online chat during the session  ==


* Review: members and OOR-related activities (2012.02.07)
see raw transcript [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/oor-metadata-07_chat-transcript_edited_20120424a.txt here].
** OOR-sandbox status
** code repository status
** NCBO
** NEU
** Raytheon-BBN
** UToronto
** Bremen
** Ryerson
** Mathet
** [[SOCoP_INTEROP]]
** [[DataONE]]
** [[NeOn]] (KMi and STL)
** ONKI
** KBSI
** MMI
** Use Cases
** Architecture
** API
** Gatekeeping
** production OOR instance
** SIO
** ICOM / DERI
** [[OntoIOp]]
** [[OntologySummit2012|Ontology Summit 2012]]
** content drive
** Funding


* '''action planning for "content drive"''' (getting people to upload ontologies)  
(for better clarity, the version below is a [ re-organized and lightly edited chat-transcript].)


* '''Getting us to a stage when we can run a OOR-production box'''
Participants are welcome to make light edits to their own contributions as they see fit.  
** ''(discussion 2011.05.06):''
*** an adopted Architecture & API is definitely crucial, but that's not all
** All team members are encouraged to mull over how we can get to that state effectively
*** in particular ... how do we make this a "successful" community-driven, open source project!?
** (discussion 2011.06.03)'' ...  


* code development on an Eclipse IDE for all?
-- begin in-session chat-transcript --


* Code repository - considering "git" or github?
-- end of in-session chat-transcript --


5. '''Funding progress:'''
6.1 Any Other Business:  


6. '''Any Other Business:'''
6.2 Action items:  


7. '''Action items:'''
6.3 Schedule Next Meeting & Adjourn:  


8. Schedule Next Meeting & Adjourn:
* Next Meeting:
** regular monthly OOR team meeting next week - Tue 2012.05.01
** then the "OOR Architecture & API Workshop-XII" on Tue 2012.05.08


* No OOR calls next two weeks as the [[OntologySummit2012_Symposium]] will be in session Apr-12 & 13 - Join us there!
* Call adjourned at: 10:27 am PDT  
** register your attendance if you haven't already done so! - [[OntologySummit2012/WorkshopRegistration]]
* Next Meetings:
** next Metadata workshop (VII) on Tue 2012.04.24 - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]]
** 2012_05_01 - next Regular OOR Team meeting - first Tuesday of the month - [[OOR/ConferenceCall_2012_05_01]]
** 2012_05_08 - Architecture-API-XII - Tue 2012.05.08 - Co-chair: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]]
 
* Call adjourned at: 9:04 am PDT  


--
--


notes taken by: [[PeterYim|Peter P. Yim]] / 2012.04.03-9:06am PDT
notes taken by: [[PeterYim|Peter P. Yim]] / 2012.04.24-12:11pm PDT


All participants, please review and edit to enhance accuracy and granularity of the documented proceedings.  
All participants, please review and edit to enhance accuracy and granularity of the documented proceedings.  
Line 208: Line 200:
== Resources  ==
== Resources  ==


* homepage - '''[[OpenOntologyRepository]]''' - http://OpenOntologyRepository.org  
* '''Homepage''' for the Open Ontology Repository Initiative - '''[[OpenOntologyRepository]]''' - '''http://OpenOntologyRepository.org''' or simply '''http://www.oor.net'''
* '''[[OpenOntologyRepository|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.  
* '''[[OpenOntologyRepository|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"  
* '''"Ontology Repository" Definition''' - "An ontology repository is a facility where ontologies and related information artifacts can be stored, retrieved and managed"  
* '''Team mailling list:'''  
* '''Team mailling list:'''  
Line 264: Line 259:
** 2012_01_17 - Tuesday: OOR Metadata Workshop-V - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2012_01_17]]  
** 2012_01_17 - Tuesday: OOR Metadata Workshop-V - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2012_01_17]]  
** 2012_03_06 - Tuesday: OOR Metadata Workshop-VI - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2012_03_06]]  
** 2012_03_06 - Tuesday: OOR Metadata Workshop-VI - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2012_03_06]]  
** 2012_04_24 - Tuesday: OOR Metadata Workshop-VII - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2012_04_24]]


*   
*   
Line 301: Line 297:
* '''[[OOR/ActiveMemberContribution]]'''  
* '''[[OOR/ActiveMemberContribution]]'''  
* '''OOR Project site at [[SemWebCentral]]''' - http://oor.semwebcentral.org  
* '''OOR Project site at [[SemWebCentral]]''' - http://oor.semwebcentral.org  
* '''Public instances of OOR - http://sandbox.oor.net/ontologies''' (previously http://oor-01.cim3.net/ontologies) ... we are in process to standing up:
* '''Public instances of OOR''' - '''http://oor.net'''  
** '''[[OOR_SandBox]]''' - http://oor-03.cim3.net - http://sandbox.oor.net/  
** [[OOR_SandBox]] - http://oor-03.cim3.net - http://sandbox.oor.net/  
** '''[[OOR_DevBox]]''' - http://oor-05.cim3.net - http://dev.oor.net/  
*** see also: [[OOR_SandBox_Customization]]
** '''OOR Test instance''' - http://oor-06.cim3.net - http://test-00.oor.net/  
** [[OOR_DevBox]] - http://oor-05.cim3.net - http://dev.oor.net/  
*** see also: '''[[OOR_SandBox_Customization]]'''
** a first OOR Test instance - http://oor-06.cim3.net - http://test-00.oor.net/  
** '''SOCoP[http://socop.oor.net/ _OOR]''' - http://oor-04.cim3.net - http://socop.oor.net/ontologies  
** SOCoP[http://socop.oor.net/ _OOR] - http://oor-04.cim3.net - http://socop.oor.net/ontologies  
** '''COLORE[http://code.google.com/p/colore/source/browse/#svn%2Ftrunk%2Fontologies _OOR] - http://code.google.com/p/colore/source/browse/#svn%2Ftrunk%2Fontologies
** [http://code.google.com/p/colore/source/browse/#svn%2Ftrunk%2Fontologies COLORE_OOR] - http://colore.oor.net
** '''[[NCBO]] - [http://bioportal.bioontology.org/ BioPortal]'''
** [http://mercury-ncbo.ornl.gov/ontologies ORNL-DAAC] - http://ornl-daac.oor.net
** [http://mmisw.org/orr/ MMI-ORR] - http://mmisw.oor.net
** [[NCBO]] - [http://bioportal.bioontology.org/ BioPortal]  
*** BioPortal's [bioontology-support] mailing list - see: https://mailman.stanford.edu/mailman/listinfo/bioontology-support  
*** 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  
** NCBO-OOR development documentation - http://www.bioontology.org/wiki/index.php/NCBO-OOR_Development  
----
== How To Join (while the session is in progress)  ==
* '''1.''' Dial in with a phone and connect through skype: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A0H
* '''2.''' Open chat in a new browser window: http://webconf.soaphub.org/conf/room/oor_20120424
* '''3.''' Download the speaker's presentation (slides) here: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A06
** or, '''3.1''' [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_04_24#nid3A0N access our shared-screen vnc server], if you are not behind a corporate firewall


[[Category:Event_Meeting]]    [[Category:OOR]]
[[Category:Event_Meeting]]    [[Category:OOR]]

Latest revision as of 07:36, 9 January 2016

OpenOntologyRepository: Metadata Workshop-VII - Tue 2012_04_24

Topic: OOR Metadata Workshop-VII: Metadata in Ontology Mapping

Session Chair: Professor MichaelGruninger (University of Toronto)

Panelists:

  • Dr. Oliver Kutz / Dr. Christoph Lange / Dr. TillMossakowski (University of Bremen, Germany) - "Ontology Links in the Distributed Ontology Language (DOL)" [ slides ]
  • Dr. JeromeEuzenat (INRIA & LIG, France) - "Ontology alignment metadata" ... [ slides ]
  • Dr. NatashaNoy (Stanford University, USA) - "Mapping repository in BioPortal" ... [ slides ]

Archives:

Conference Call Details

  • Date: Tuesday, 24-April-2012
  • Start Time: 8:30am PDT / 11:30am EDT / 5:30pm CEST / 15:30 UTC
  • Expected Call Duration: 1.5~2.0 hours
  • Dial-in:
    • Phone (US): +1 (206) 402-0100 (long distance cost will apply)
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    • Skype: joinconference ... generally free-of-charge, when connecting from your computer)
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    • people behind corporate firewalls may have difficulty accessing this. If that is the case, please download the slides above (where applicable) and running them locally. The speaker(s) will prompt you to advance the slides during the talk.
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    • During the Q&A / discussion segment (when everyone is muted), If you want to speak or have questions or remarks to make, please raise your hand (virtually) by clicking on the "hand button" (lower right) on the chat session page. You may speak when acknowledged by the session moderator (again, press "*7" on your phone to un-mute). Test your voice and introduce yourself first before proceeding with your remarks, please. (Please remember to click on the "hand button" again (to lower your hand) and press "*6" on your phone to mute yourself after you are done speaking.)
  • 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.
  • 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.)

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. ...
  • Regrets:
    • ...

Abstract

Topic: OOR Metadata Workshop-VII: Metadata in Ontology Mapping

by: Michael Grüninger

The OOR Metadata Workshop series is devoted to exploring existing and proposed approaches to the specification of metadata for ontologies, particularly in the context of ontology repositories.

The workshop today will focus on ontology metadata for ontology mappings.

References

Agenda & Proceedings

Full proceedings will be made available in our archives after the session.

1. Meeting called to order - chair: Michael Grüninger

2. Introduction of the panel - chair: Michael Grüninger (~5 min.)

3. Presentation by the the panelists (~20 min. each) ... [ slides ]

  • Oliver Kutz / Christoph Lange / Till Mossakowski - "Ontology Links in the Distributed Ontology Language (DOL)"
    • Abstract: The Distributed Ontology Language DOL, which is currently being standardised as ISO WD 17347 within the OntoIOp (Ontology Integration and Interoperability) activity of ISO/TC 37/SC 3, aims at providing a unified framework for
        • ontologies formalised in heterogeneous logics,
        • modular ontologies,
        • links between ontologies, and
        • annotation of ontologies.
      • A DOL ontology consists of modules formalised in basic ontology languages, such as OWL or Common Logic, which are serialised in the existing syntaxes of these languages. On top of this, DOL provides a meta-level which allows for expressing heterogeneous ontologies and links between ontologies. This talk focuses on the latter. Links include
        • logical links: (heterogeneous) imports and theory interpretations, as well as
        • alignments, which largely follow the syntax specified by the Alignment API.

DOL also supports the combination of ontologies via links (technically, these combinations are colimits). Tool support for DOL is provided by the Heterogeneous Tool Set (Hets).

  • Jerome Euzenat - "Ontology alignment metadata"
    • Abstract: It is very important to be able to publish and address ontology alignments,

i.e., sets of correspondences between entities of two ontologies. Competing alignments may exists between the same pair of ontologies for many reasons such as completeness, correctness, or expressiveness. It is worth being able of identify such alignments. Metadata on alignments, and correspondences, are helpful to retrieve and to qualify them. Such metadata may be used for alignment characterisation, provenance, or quality. Metadata for alignments is not a stabilised area so it is preferable to offer an extensible annotation framework. I will report on how this is dealt with in the Alignment API and the Alignment server.

  • Natasha Noy - "Mapping repository in BioPortal"
    • Abstract: BioPortal, the open ontology repository developed by the National Center for Biomedical Ontology, contains more than 300 ontologies. These ontologies inevitably overlap in content. Thus, in addition to serving as an ontology repository, BioPortal also provides a repository of mappings between the terms in the ontologies. This repository contains the mappings that the BioPortal team generates automatically, the mappings created by the users interactively through the BioPortal user interface, and the mappings that our users have created elsewhere and contributed to BioPortal. The metadata for mappings describes the provenance of the mappings, enables users to comment on and discuss the mappings, and allows users to add extra information such as transformation scripts.

4. Q & A and Open discussion (~20 min.) ... (ref. process above)

6. Wrap-up: Announcements and Follow-up actions (where applicable) - chair: Michael Grüninger (~5 min.)

Transcript of the online chat during the session

see raw transcript here.

(for better clarity, the version below is a [ re-organized and lightly edited chat-transcript].)

Participants are welcome to make light edits to their own contributions as they see fit.

-- begin in-session chat-transcript --

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

6.1 Any Other Business:

6.2 Action items:

6.3 Schedule Next Meeting & Adjourn:

  • Next Meeting:
    • regular monthly OOR team meeting next week - Tue 2012.05.01
    • then the "OOR Architecture & API Workshop-XII" on Tue 2012.05.08
  • Call adjourned at: 10:27 am PDT

--

notes taken by: Peter P. Yim / 2012.04.24-12:11pm PDT

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

Resources

  • 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

How To Join (while the session is in progress)



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