Actions

OOR/ConferenceCall 2011 11 22 and OOR/ConferenceCall 2011 11 29: Difference between pages

Ontolog Forum

(Difference between pages)
imported>KennethBaclawski
(Fix PurpleMediaWiki references)
 
imported>KennethBaclawski
(Fix PurpleMediaWiki references)
 
Line 1: Line 1:
= [[OpenOntologyRepository]]: OOR Development Workshop-VI - Tue 2011_11_22 =
= Joint [[NCBO]]-[[OOR]] Workshop: "BioPortal and OOR Synergies" - Tue 29-Nov-2011 =


This is our '''"Getting OOR Development Going - Take VI" workshop''' which we will devote to the topic of how we should be organized to getting real OOR-related open source software development work going ...
Topic: "'''OOR Architecture & API Workshop-IX: [[BioPortal]] & OOR Synergies'''"


Topic: "'''Getting OOR Development Going - Take VI'''"
Session Co-chairs: '''Professor KenBaclawski''' and '''Dr. ToddSchneider'''  


Session Chair: '''MikeDean'''  
Discussant: '''Dr. Ray Fergerson''' [ [http://ontolog.cim3.net/file/work/OpenOntologyRepository/2011-11-29_BioPortal-OOR-Synergies/OOR-BioPortal-Architecture-and-Plans--RayFergerson_20111129.pdf slides] ]


=== [[MeetingsCalls|Conference Call]] Details ===
== Abstract  ==
 
Topic: "'''OOR Architecture & API Workshop-IX: [[BioPortal]] & OOR Synergies'''"
 
:'''This workshop will examine the current differences between [[BioPortal]] and OOR requirements and draft architecture and address the plan of action to extend [[BioPortal]] to satisfy the OOR requirements.'''
 
: '''The session will revolve around the following two subjects:'''
 
: 1. '''BioPortal - OOR Differences: Current & Future'''
: 2. '''How to extend [[BioPortal]] to meet OOR Goals'''
 
== Agenda Proceedings  ==
 
'''[http://ontolog.cim3.net/file/work/OpenOntologyRepository/2011-11-29_BioPortal-OOR-Synergies/ Archives]:'''
 
* '''[http://ontolog.cim3.net/file/work/OpenOntologyRepository/2011-11-29_BioPortal-OOR-Synergies/OOR-BioPortal-Architecture-and-Plans--RayFergerson_20111129.pdf Fergerson slides]'''
* '''[http://ontolog.cim3.net/file/work/OpenOntologyRepository/2011-11-29_BioPortal-OOR-Synergies/NCBO-OOR-synergies_20111129b.mp3 audio recording of the session]''' [ 1:24:22 ; MP3 ; 9.66MB ]
* '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_11_29#nid2ZGC chat-transcript of this session]'''
 
1. Meeting called to order:
 
* [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] took the chair and welcome everyone
* review and adopt agenda
* [[PeterYim|Peter P. Yim]] volunteered to take notes
 
2. Roll Call:
 
* see [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_11_29#nid2ZF6 above]
 
* welcome and intro of new member(s) (as needed)
 
3. Key items for review and discussion today:
 
Topic: "'''OOR Architecture & API Workshop-IX: [[BioPortal]] & OOR Synergies'''"
 
3.1  "'''BioPortal - OOR Differences: Current & Future'''" - (RayFergerson et al.)
 
3.2  "'''How to extend [[BioPortal]] to meet OOR Goals'''" - (All)
 
* ([http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_11_22#nid2ZA2 ref.] suggested) Issues we could discuss at this joint NCBO-OOR session
** BioPortal's Roadmap or priorities
** [[PeterYim|Peter P. Yim]]: aligning [[BioPortal]] & OOR architecture and API to create and maximize synergies
** clearly identify functionalities that either the NCBO or the OOR development team will be pursuing
*** federation (BBN is happy to contribute their earlier code)
** which specific [http://www.eclipse.org/webtools/ "WebTools" package](s) is [[PaulAlexander|Paul Alexander]] using
** status of export/import/upgrade process for NCBO appliance
** availability of Java, Ruby, or other client stubs for invoking [[BioPortal]] REST services
 
3.3  '''Discussion Notes'''
 
3.4 '''Transcript of the online chat during the session'''
 
see raw transcript [http://ontolog.cim3.net/file/work/OpenOntologyRepository/2011-11-29_BioPortal-OOR-Synergies/oor_chat-transcript_unedited_20111129b.txt here].
 
(for better clarity, the version below is a [http://ontolog.cim3.net/file/work/OpenOntologyRepository/2011-11-29_BioPortal-OOR-Synergies/oor_chat-transcript_edited_20111129c.txt re-organized and lightly edited chat-transcript].)
 
Participants are welcome to make light edits to their own contributions as they see fit.
 
-- begin of chat session --
 
[[PeterYim|Peter P. Yim]]: Welcome to the
 
= Joint NCBO-OOR Workshop: "BioPortal and OOR Synergies" - Tue 29-Nov-2011 =  
 
Topic: "OOR Architecture & API Workshop-IX: [[BioPortal]] & OOR Synergies"
 
Session Co-chairs: Professor [[User:KennethBaclawski|Ken Baclawski]] and Dr. [[ToddSchneider|Todd Schneider]]
 
Discussant: Dr. Ray Fergerson
 
Session page: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_11_29
 
Phone keypad controls: To un-mute, press "*7" ... To mute, press "*6"
 
== Proceedings: ==
 
anonymous morphed into Gilberto Fragoso
 
[[MikeRiben|Mike Riben]]: mike riben listening in on skype
 
[[MikeRiben|Mike Riben]]: not sure I have a mic
 
[[PeterYim|Peter P. Yim]]: Hi Michael
 
anonymous morphed into [[CarlosRueda|Carlos Rueda]]
 
anonymous morphed Deanna Marino
 
anonymous morphed into [[PaulCourtney|Paul Courtney]]
 
anonymous morphed into [[TrishWhetzel|Trish Whetzel]]


* Date: '''Tuesday, 22-Nov-2011'''
[[ToddSchneider|Todd Schneider]]: For those not familiar with OOR requirements or goals, please ask.  
* Start Time: 8:30am PST / 11:30am EST / 5:30pm CET / 16:30 UTC
** ref: [http://www.timeanddate.com/worldclock/fixedtime.html?month=11&day=22&year=2011&hour=8&min=30&sec=0&p1=224 World Clock]  
* Expected Call Duration: ~1.5 hours


* Dial-in:
[[ToddSchneider|Todd Schneider]]: OOR high level requirements: Storing, Management, Governance of Ontologies & Related
** '''Phone (US): +1 (206) 402-0100''' ''long distance cost will apply)''
*** ... [ backup nbr: (415) 671-4335 ]
** '''Skype: joinconference''' ... ''(free-of-charge if you connect through skype from your computer/device with an Internet connection)''
** when prompted enter '''PIN: 141184#'''


* '''In-session chat'''-room url: http://webconf.soaphub.org/conf/room/oor_20111122
Items; Discovery / Searching Ontologies; Scalable (Parallelism, Federation); Multi-Language Support;


* '''Shared-screen support''' (VNC session), if applicable, will be started 5 minutes before the call at: http://vnc2.cim3.net:5800/
Arbitrary Knowledge Domain; Platform Independent
** view-only password: "ontolog"
** 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 '''[ 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/ontolog_20111122
anonymous morphed into [[LinePouchard|Line Pouchard]]
** 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) ontolog_20111122@soaphub.org ... Handy for mobile devices!


* '''Discussions and Q & A:'''
[[LinePouchard|Line Pouchard]]: Q about searches: it seems that Boolean searches are not supported for term searches.  
** 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 community.)
Are there plans to support this?


* Please review our Virtual Session Tips and Ground Rules - see: [[VirtualSpeakerSessionTips]]  
[[LinePouchard|Line Pouchard]]: What does it take to make it a big requirement?


* '''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.)
[[TrishWhetzel|Trish Whetzel]]: Hi Line - would you like to submit this as a feature request?


* 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_2011_11_22
[[LinePouchard|Line Pouchard]]: Sourceforge bug tracking, sounds good, thanks.  


* 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]].  
[[LinePouchard|Line Pouchard]]: Trish, yes I would like to.  


== Attendees  ==
[[TrishWhetzel|Trish Whetzel]]: Ok, I'll submit this as a feature request and as Ray mentioned we'll get this into the


* Attended:
development cycle. If you come across any other feature requests or bug reports, feel free to send
** [[MikeDean|Mike Dean]] (chair)
** [[PeterYim|Peter P. Yim]] (scribe)
** [[User:KennethBaclawski|Ken Baclawski]]
** [[ToddSchneider|Todd Schneider]]
** [[MichaelGruninger|Michael Grüninger]]
** [[BrianDavis|Brian Davis]]


* Expecting:  
these to our user support mailing list: support@bioontology.org
* 
** ... ''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:
[[ToddSchneider|Todd Schneider]]: Eric, I see your 'hand' is up. Do you have a question for Ray?
** [[LeoObrst|Leo Obrst]]  


== Agenda Ideas  ==
Eric S. Chan: Do you consider using an ontology for reification of notes, discussions, reviews,


''please insert any additional items below (along with your name for follow-up purposes)''
etc., that can be attached to the Biomedical Ontology? Peter Yim and I had suggested OASIS ICOM


* Identifying issues that are holding back the OOR-oss-dev work
ontology (http://www.oasis-open.org/committees/download.php/44405/icom-ics-v1.0-csprd02.zip) for
* Review what it takes to develop upon BioPortal's existing development framework
* Refine how we should move development forward from here
* Task distribution and getting organized
* Action planning (with consensus milestones)  


* ... ''(please add to the above)''
reification of collaborative contents in OOR.  


== Agenda & Proceedings  ==
[[ToddSchneider|Todd Schneider]]: Eric, can we ask your question when Ray is done with his presentation?


'''[http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-dev/ Archives]:'''
Eric S. Chan: yes, I can ask the question during the Q/A


* '''[http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-dev/OOR-dev-VI_20111122b.mp3 audio recording of the session]''' [ 1:15:41 ; mp3 ; 8.66 MB ]
[[ToddSchneider|Todd Schneider]]: Ray, don't encourage the use of UML.  
* '''[http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-dev/oor_chat-transcript_20111122b.txt chat-transcript of this session]'''


1. Meeting called to order:  
[[PeterYim|Peter P. Yim]]: @ALL: for everyone's information Michael Gruninger who champions our OOR-Metadata


* [[MikeDean|Mike Dean]] takes the chair and welcome everyone
workshop, is planning one on Dec-13 ... there is plan to invite [[HaroldSolbrig|Harold Solbrig]] (Mayo) over to talk
* review and adopt agenda
* [[PeterYim|Peter P. Yim]] volunteered to take notes


2. Roll Call:
about their recent ontology metadata "crosswalk" study, which, among others, included OMV, CTS2. ...  


* see [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_11_22#nid2Z91 above]
Please mark your calendars ... we'll look forward to having you at the session on Tue 2011.12.13


* welcome and intro of new member(s) (as needed)
see development details at: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_12_13
** [[BrianDavis|Brian Davis]] from caBIG's [https://wiki.nci.nih.gov/display/VCDE/Ontology+Representation+WG ORWG] joined us and made an intro of [[ORWG]] and himself


3. Status Review and Discussion:
[[MikeBennett|Mike Bennett]]: On notes and annotations, are the bioportal notes ontology items aligned with or


* '''Review and update our "Most Critical Task(s) At Hand" list''' ... ''(skipped)''
reusing concepts in SKOS that relate to notes?  
** ref. http://ontolog.cim3.net/cgi-bin/wiki.pl?OpenOntologyRepository#nid17YH


=== 4. Key items for review and discussion today  ===
[[ToddSchneider|Todd Schneider]]: Mike's query raises an interesting capability, the ability to sufficiently


Topic: "'''Getting OOR Development Going - Take VI'''"
distinguish the domains covered by a particular ontology repository (to support distributed


* identifying issues that are holding back the OOR-dev work
queries).  
** [[MikeDean|Mike Dean]]: issues:  limited (or no) time and funding
** [[ToddSchneider|Todd Schneider]]: What to code or fix.  
** [[MikeDean|Mike Dean]]: issues:  architectural uncertainty (being resolved)
** [[MichaelGruninger|Michael Gr&uuml;ninger]]: the current implementation restricts ontologies to be specified in OWL
** [[PeterYim|Peter P. Yim]]: being a totally volunteered project does present a challenge
** [[MikeDean|Mike Dean]]: issues:  platform distribution/installation changes (being resolved)


* Issues we could discuss at the Nov-29 joint NCBO-OOR session
[[ToddSchneider|Todd Schneider]]: Carlos, did you want to ask Ray?
** [[MikeDean|Mike Dean]]: status of export/import/upgrade process for NCBO appliance
** [[MikeDean|Mike Dean]]: availability of Java, Ruby, or other client stubs for invoking [[BioPortal]] REST services
** [[ToddSchneider|Todd Schneider]]: BioPortal's Roadmap or priorities
** [[PeterYim|Peter P. Yim]]: clearly identify functionalities that either the NCBO or the OOR development team will be pursuing
*** [[MikeDean|Mike Dean]]: federation (BBN is happy to contribute their earlier code)
** [[MikeDean|Mike Dean]]: which specific [http://www.eclipse.org/webtools/ "WebTools" package](s) is [[PaulAlexander|Paul Alexander]] using
** [[PeterYim|Peter P. Yim]]: I would still hope aligning architecture and API and creating synergies would still be the main focus for that session


* Refine how we should move development forward from here
[[CarlosRueda|Carlos Rueda]]: My question is just about a topic already in the agenda: "how to extend BioPortal"  
** MikeDean/2011.11.08: suggest starting a wiki page for [[OOR_DeveloperTools]] to share some of the experience and provide some consensus on tools to use
** KenBaclawski/2011.11.08: it would be helpful to find out from [[PaulAlexander|Paul Alexander]] which specific [http://www.eclipse.org/webtools/ "WebTools" package](s) he is using ... question for the Nov-29 session (if not sooner)


* Task distribution and getting organized - ''(deferred)''
[[TrishWhetzel|Trish Whetzel]]: While not limited to ontology repositories, but geared more towards the content of
** ...


* Action planning (with consensus milestones)
triple stores, there is an effort to catalog the contents of triple stores via the dbcatalog group,  
** [2011.11.08] [[MikeDean|Mike Dean]] will look through the current [[BioPortal]] project to see what they are using; which will eventually get us to a reference developer platform for OOR developers
** [2011.11.08] Develop a "guideline on how to develop a language module" and the API for language module developers to plug into [suggested by Eric - Ken & Todd to work on]
** [2011.11.08] '''Preparation for the Nov-29 session''': all developers are requested to have reviewed the [[BioPortal]] "tab" development criteria, and hopefully, has done a "hello world" tab, prior to this session.
*** ref. details at: at: http://palexander.posterous.com/extending-bioportals-rails-ui


* ref. also: discussion as captured in the [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-dev/oor_chat-transcript_20111122b.txt in-session chat]
http://groups.google.com/group/dbcatalog


5. '''Getting Organized:'''
[[PeterYim|Peter P. Yim]]: great session ... thank you, Ray, Todd, Ken and All!


* ''(discussion deferred)''
[[PeterYim|Peter P. Yim]]: -- session ended: 10:02am PST --


6. '''Action items:'''
-- end of chat session --


* [2011.11.22]: Peter to start a Nov-29 preparation email thread with Ken, Todd, Ray et al. to tie down the agenda for the 11/29 session
* Further Question & Remarks - please post them to the [ [http://ontolog.cim3.net/forum/oor-forum/ oor-forum] ] listserv
** if you are already subscribed, post to <oor-forum [at] ontolog.cim3.net>
** (if you are not yet subscribed) you may subscribe yourself to the [ oor-forum ] listserv listserv, by sending a blank email to <oor-forum-join [at] ontolog.cim3.net> from your subscribing email address, and then follow the instructions you receive back from the mailing list system.


* [2011.11.22]: Brian will post wiki link to HaroldSolbrig's metadata cross-walk work ... and Michael will invite Harold to present that work on Dec-13 for us
4. '''Action items:'''


7. '''Any Other Business:'''  
5. '''Any Other Business:'''  


8. Schedule Next Meeting & Adjourn:  
6. Schedule Next Meeting & Adjourn:  


* Next Meetings:  
* Next Meetings:  
** 2011_11_29: Joint OOR-NCBO "Architecture-API" session - co-chair: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] - [[OOR/ConferenceCall_2011_11_29]]
** 2011_12_06: regular OOR team meeting - [[OOR/ConferenceCall_2011_12_06]]  
** 2011_12_06: regular OOR team meeting - [[OOR/ConferenceCall_2011_12_06]]  
** 2011_12_13: OOR-metadata workshop take-V - chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2011_12_13]]  
** 2011_12_13: OOR-metadata workshop take-V - chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2011_12_13]]  


* Call adjourned at: 9:51 am PST  
* Call adjourned at: 10:02 am PST  


--
--


notes taken by: [[PeterYim|Peter P. Yim]] / 2011.11.08-10:03am PST
notes taken by: [[PeterYim|Peter P. Yim]] / 2011.11.29-___am PST


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 169: Line 205:
== Resources  ==
== Resources  ==


* homepage - '''[[OpenOntologyRepository]]''' - http://OpenOntologyRepository.org  
* '''[[NCBO]] - National Center for Biomedical Ontology''' - http://www.bioontology.org/
* '''[[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.  
* The '''BioPortal''' - http://bioportal.bioontology.org/
* '''"Ontology Repository" Definition''' - "An ontology repository is a facility where ontologies and related information artifacts can be stored, retrieved and managed"
* '''[[OpenOntologyRepository]]''' - Homepage for the OOR initiative
* '''Team mailling list:'''
* A recent presentation on OOR - [http://ontolog.cim3.net/file/work/OOR/OOR_presentations_publications/OOR-SemTech_Jun2010.pdf OOR Presentation at SemTech2010]
** OOR-Team discussion: [ [http://ontolog.cim3.net/forum/oor-forum/ oor-forum] ]''' message archives - http://ontolog.cim3.net/forum/oor-forum/
* [[OpenOntologyRepository_IPR]] Policy
** OOR-Users discussion and support: [ [http://ontolog.cim3.net/forum/oor-users/ oor-users] ]''' message archives - http://ontolog.cim3.net/forum/oor-users/
* '''[[OpenOntologyRepository_Requirement]]'''  
** Developers mailling list: '''[ [http://ontolog.cim3.net/forum/oor-dev/ oor-dev] ]''' message archives - http://ontolog.cim3.net/forum/oor-dev/
* '''[[OpenOntologyRepository_UseCases]]'''  
* proceedings of our '''[[OpenOntologyRepository|previous meetings, panel discussions and workshops]]'''  
* '''[[OpenOntologyRepository_Architecture]]'''  
* the '''Joint [[OOR]]-OntologySummit2008 Panel Discussions''':
* 2011_09_13 - Tuesday: Joint NCBO-OOR Panel Discussion: "Kicking-off the Next Phase of Collaboration" - Co-chairs: Dr. [[RayFergerson|Ray Fergerson]] & Mr. [[PeterYim|Peter P. Yim]] - Panelists: Professor Mark Musen (NCBO; Stanford), Dr. Natasha Noy (NCBO; Stanford), Dr. [[TrishWhetzel|Trish Whetzel]] (NCBO; Stanford), Dr. [[LeoObrst|Leo Obrst]] (OOR; MITRE), Professor [[User:KennethBaclawski|Ken Baclawski]] (OOR; Northeastern U) & Dr. [[ToddSchneider|Todd Schneider]] (OOR; Raytheon) - [[OOR/ConferenceCall_2011_09_13]]  
** 2008_02_28 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "Ontology Registry and Repository Technology & Infrastructure Landscape" - Co-chairs: [[LeoObrst|Leo Obrst]] & [[FrankOlken|Frank Olken]]; Panelists: [[Bargmeyer|Bruce Bargmeyer]], [[MikeDean|Mike Dean]], Mark Musen, [[FarrukhNajmi|Farrukh Najmi]] & [[PeterYim|Peter P. Yim]] - ConferenceCall_2008_02_28
* 2010_09_17 - Friday: OOR Panel Discussion - "Getting OOR Development Going - Take-IV" Workshop - Co-chairs: Dr. [[ToddSchneider|Todd Schneider]] & Professor [[MichaelGruninger|Michael Gr&uuml;ninger]] - Panelists: Dr. [[ToddSchneider|Todd Schneider]] (Raytheon), Mr. [[MikeDean|Mike Dean]] (Raytheon-BBN), Dr. Natasha Noy (NCBO, Stanford University), Dr. [[ImmanuelNormann|Immanuel Normann]] (Bremen University, BORG), Professor [[User:KennethBaclawski|Ken Baclawski]] (Northeastern University), Professor [[MichaelGruninger|Michael Gr&uuml;ninger]] (University of Toronto) - [[OOR/ConferenceCall_2010_09_17]]  
** 2008_03_27 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "An Open Ontology Repository: Rationale, Expectations & Requirements - Session-1" - Chair: [[LeoObrst|Leo Obrst]] & [[FabianNeuhaus|Fabian Neuhaus]]; Panelists: [[WilliamBug|William Bug]], [[EvanWallace|Evan Wallace]], [[JohnLMcCarthy]], [[User:KennethBaclawski|Ken Baclawski]], [[PeterBenson|Peter Benson]] & [[RexBrooks|Rex Brooks]] - ConferenceCall_2008_03_27
* 2009_10_15 - Thursday: "OOR-BioPortal Comparative Analysis" panel discussion - Chair: [[ToddSchneider|Todd Schneider]] - Panelists: Natasha Noy, MichaelDorf, [[User:KennethBaclawski|Ken Baclawski]], [[ElisaKendall|Elisa Kendall]] & [[MikeDean|Mike Dean]] - ConferenceCall_2009_10_15
** 2008_04_03 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "An Open Ontology Repository: Rationale, Expectations & Requirements - Session-2" - Chair: [[LeoObrst|Leo Obrst]] & [[FabianNeuhaus|Fabian Neuhaus]]; Panelists: [[DougLenat|Doug Lenat]], [[DekeSmith|Deke Smith]], [[MarciaZeng|Marcia Zeng]], [[DeniseBedford|Denise Bedford]], [[PatHayes|Pat Hayes]], [[MalaMehrotra|Mala Mehrotra]] & [[RobRaskin|Rob Raskin]] - ConferenceCall_2008_04_03
* 2009_07_30 - Thursday: Joint Ontolog-OOR Panel Discussion: "BioPortal and related Ontology Repository Implementations and Development" (Take-3) - Chair: Natasha Noy - Panelists: [[CarlosRueda|Carlos Rueda]], [[PaulAlexander|Paul Alexander]], [[JohnGraybeal|John Graybeal]], [[MikeDean|Mike Dean]], StephenGranite, AlexGarcia, [[User:KennethBaclawski|Ken Baclawski]] - ConferenceCall_2009_07_30  
** 2008_04_10 - Thursday: Joint OOR-OntologySummit2008 Panel Discussion: "Developing an Ontology of Ontologies for OOR" - Co-chairs: [[BarrySmith|Barry Smith]] & [[MichaelGruninger|Michael Gr&uuml;ninger]]; Panelists: [[MichaelGruninger|Michael Gr&uuml;ninger]], [[PeterHaase|Peter Haase]], Natasha Noy & [[ElisaKendall|Elisa Kendall]] - ConferenceCall_2008_04_10
* 2009_02_19 - Thursday: Joint Ontolog-OOR Panel Discussion: "Getting OOR Development Off the Ground (Take-2): the work begins" - Chair: [[ToddSchneider|Todd Schneider]]; Panelists: Mark Musen, Natasha Noy, [[MikeDean|Mike Dean]], [[PaulBuitelaar|Paul Buitelaar]] / [[AndreasHarth|Andreas Harth]], [[MathieuDaquin|Mathieu Daquin]], [[User:KennethBaclawski|Ken Baclawski]], [[MichaelGruninger|Michael Gr&uuml;ninger]] - ConferenceCall_2009_02_19
* the '''OOR Development panel sessions''':
* 2008_08_22 - Friday: OOR Panel Discussion: "Getting OOR Development Off the Ground: Identifying Synergies & Gaps" (Take-1) - Chair: [[LeoObrst|Leo Obrst]]; Panelists: [[MikeDean|Mike Dean]], Mark Musen, [[LiDing|Li Ding]], [[Bargmeyer|Bruce Bargmeyer]] & [[BillAndersen|Bill Andersen]] - ConferenceCall_2008_08_22
** 2008_08_22 - Friday: OOR Panel Discussion: "Getting OOR Development Off the Ground: Identifying Synergies & Gaps" (Take-1) - Chair: [[LeoObrst|Leo Obrst]]; Panelists: [[MikeDean|Mike Dean]], Mark Musen, [[LiDing|Li Ding]], [[Bargmeyer|Bruce Bargmeyer]] & [[BillAndersen|Bill Andersen]] - ConferenceCall_2008_08_22
* 2008_04_29 - Our team made a presentation with our history, status, OOR rationale and requirements, and a proposed roadmap at the [[OntologySummit2008|Ontology Summit 2008]] - see: http://ontolog.cim3.net/cgi-bin/wiki.pl?OntologySummit2008/FaceToFaceAgenda#nid1BLS
** 2009_02_19 - Thursday: Joint Ontolog-OOR Panel Discussion: "Getting OOR Development Off the Ground (Take-2): the work begins" - Chair: [[ToddSchneider|Todd Schneider]]; Panelists: Mark Musen, Natasha Noy, [[MikeDean|Mike Dean]], [[PaulBuitelaar|Paul Buitelaar]] / [[AndreasHarth|Andreas Harth]], [[MathieuDaquin|Mathieu Daquin]], [[User:KennethBaclawski|Ken Baclawski]], [[MichaelGruninger|Michael Gr&uuml;ninger]] - ConferenceCall_2009_02_19
* 2007_12_06 - Thursday: Invited Speaker - Professor Mark Musen: "If we build it, will they come? Social-engineering of new technology to disseminate biomedical ontologies" - ConferenceCall_2007_12_06
** 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: [[TaniaTudorache|Tania Tudorache]], [[TimRedmond|Tim Redmond]], Natasha Noy - ConferenceCall_2009_07_16
* '''OntologySummit2008 - "Toward An Open Ontology Repository"'''  
** 2009_07_30 - Thursday: Joint Ontolog-OOR Panel Discussion: "BioPortal and related Ontology Repository Implementations and Development" (Take-3) - Chair: Natasha Noy - Panelists: [[CarlosRueda|Carlos Rueda]], [[PaulAlexander|Paul Alexander]], [[JohnGraybeal|John Graybeal]], [[MikeDean|Mike Dean]], StephenGranite, AlexGarcia, [[User:KennethBaclawski|Ken Baclawski]] - ConferenceCall_2009_07_30  
** 2010_02_19 - Friday: OOR Panel Discussion: "Coordinating our Open Ontology Repository Software Development" - Chair: [[MikeDean|Mike Dean]] - Panelists: [[JimChatigny|Jim Chatigny]], [[MichaelGruninger|Michael Gr&uuml;ninger]], [[User:KennethBaclawski|Ken Baclawski]], Natasha Noy - [[OOR/ConferenceCall_2010_02_19]]
** 2010_04_01 - Thursday: Joint OOR-Ontolog Panel Session: "OOR Use Cases - Take-3" - Chair: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] - Panelists: [[ToddSchneider|Todd Schneider]], [[MatthewHettinger|Matthew Hettinger]], [[User:KennethBaclawski|Ken Baclawski]] and [[MaximoGurmendez|M&aacute;ximo Gurm&eacute;ndez]] - ConferenceCall_2010_04_01
** 2010_09_10 - Friday: Joint SIO-OOR-Ontolog Panel Discussion: "Common Logic (CL) Support for OOR" - Chair: [[JohnSowa|John F. Sowa]] - Panelists: JohnBateman-TillMossakowski, [[MichaelGruninger|Michael Gr&uuml;ninger]], [[CameronRoss|Cameron Ross]], [[AdamPease|Adam Pease]], [[PatHayes|Pat Hayes]] - ConferenceCall_2010_09_10
** 2010_09_17 - Friday: OOR Panel Discussion - "Getting OOR Development Going - Take-IV" Workshop - Co-chairs: [[ToddSchneider|Todd Schneider]] & [[MichaelGruninger|Michael Gr&uuml;ninger]] - Panelists: [[ToddSchneider|Todd Schneider]], [[MikeDean|Mike Dean]], Natasha Noy, [[ImmanuelNormann|Immanuel Normann]], [[User:KennethBaclawski|Ken Baclawski]], [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[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]]
** 2010_11_19 - Friday: OOR Panel Discussion - "(Post-BioPortal fork) OOR Architecture and API - Take-II" - Co-chairs: [[User:KennethBaclawski|Ken Baclawski]] & [[MichaelGruninger|Michael Gr&uuml;ninger]] - Panelists: KenBaclawski+ToddSchneider, AldoGangemi+AlessandroAdamou, JouniTuominen+KimViljanen, [[EricChan|Eric Chan]] - [[OOR/ConferenceCall_2010_11_19]]
** 2011_03_04 - Friday: OOR "Architecture & API Specification Development Workshop-I" - Co-chairs: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] - [[OOR/ConferenceCall_2011_03_04]]
** 2011_03_11 - Friday: OOR - "Architecture & API Specification Development Workshop-II" - Co-chairs: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] - [[OOR/ConferenceCall_2011_03_11]]
** 2011_03_18 - Friday: OOR Metadata Workshop-I - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2011_03_18]]
** 2011_03_25 - Friday: OOR - "Architecture & API Specification Development Workshop-III" - Co-chairs: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] - [[OOR/ConferenceCall_2011_03_25]]
** 2011_04_22 - Friday: OOR - "Architecture & API Specification Development Workshop-IV" - Co-chairs: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] - [[OOR/ConferenceCall_2011_04_22]]
** 2011_05_13 - Friday: OOR Metadata Workshop-II - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2011_05_13]]
** 2011_05_20 - Friday: OOR - "Architecture & API Specification Development Workshop-V" - Co-chairs: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] - [[OOR/ConferenceCall_2011_05_20]]
** 2011_05_27 - Friday: OOR Metadata Workshop-III - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2011_05_27]]
** 2011_06_17 - Friday: OOR - "Architecture & API Specification Development Workshop-VI" - Co-chairs: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] - [[OOR/ConferenceCall_2011_06_17]]
** 2011_09_13 - Tuesday: Joint NCBO-OOR Team Meeting - "Kicking-off the Next Phase of Collaboration" - Co-chairs: [[RayFergerson|Ray Fergerson]] & [[PeterYim|Peter P. Yim]] - [[OOR/ConferenceCall_2011_09_13]]
** 2011_09_20 - Tuesday: OOR - "Architecture & API Specification Development Workshop-VII" - Co-chairs: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] - [[OOR/ConferenceCall_2011_09_20]]
** 2011_10_11 - Tuesday: OOR - "Architecture & API Specification Development Workshop-VII" - Co-chairs: [[User:KennethBaclawski|Ken Baclawski]] & [[ToddSchneider|Todd Schneider]] - [[OOR/ConferenceCall_2011_10_11]]
** 2011_10_18 - Friday: OOR Metadata Workshop-IV - Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[OOR/ConferenceCall_2011_10_18]]
** 2011_11_08 - Tuesday: "Getting OOR Development Going - Take-V" Workshop - Chair: [[MikeDean|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: [[MikeDean|Mike Dean]] - [[OOR/ConferenceCall_2011_11_22]]
 
* 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: [[GeorgeStrawn|George Strawn]] - Chair: [[PeterYim|Peter P. Yim]] - Panelists: [[JamieClark]], [[JohnWilbanks|John Wilbanks]], [[BrucePerens|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: [[CameronRoss|Cameron Ross]], [[AlanRector|Alan Rector]], [[JohnSowa|John F. Sowa]], [[BrucePerens|Bruce Perens]], [[JohnWilbanks|John Wilbanks]], [[PeterYim|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: [[LeoObrst|Leo Obrst]] - Panelists: [[PeterYim|Peter P. Yim]], [[MikeDean|Mike Dean]], [[BrucePerens|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: [[JohnBateman|John Bateman]] & [[MichaelGruninger|Michael Gr&uuml;ninger]] - [[ConferenceCall_2011_10_20]]
** 2011_11_03 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-2: Invited Speaker: [[ElisaKendall|Elisa Kendall]] on "Ontology-Related Metadata Standards" - Co-chairs: [[MichaelGruninger|Michael Gr&uuml;ninger]] & [[JohnBateman|John Bateman]] - [[ConferenceCall_2011_11_03]]
 
* '''OntologySummit2008''' homepage
** '''[[OntologySummit2008_Communique]]'''  
** '''[[OntologySummit2008_Communique]]'''  
** '''[[OntologySummit2008/FaceToFaceAgenda]] & Proceedings'''
* our most recent regular OOR-team meeting - [[OOR/ConferenceCall_2011_09_06]]  
** The '''[http://ontolog.cim3.net/file/work/OntologySummit2008/2008-04-2829_F2F-workshop/OntologySummit2008_OOR-Presentation--MikeDean-LeoObrst-PeterYim_20080429.ppt OOR Project] Presentation''' (delivered at the [[OntologySummit2008|Ontology Summit 2008]] face-to-face workshop)
* [ [http://ontolog.cim3.net/forum/oor-forum/ oor-forum] ] message archive - http://ontolog.cim3.net/forum/oor-forum/  
* '''[ [http://ontolog.cim3.net/forum/ontology-summit/ ontology-summit] ]''' discussion archives - http://ontolog.cim3.net/forum/ontology-summit/2008-01/ (~5 months exchanges starting from Jan-2008)
** (if you are not yet subscribed) you may subscribe yourself to the [ [http://ontolog.cim3.net/mailman/listinfo/oor-forum/ oor-forum] ] listserv, by sending a blank email to <oor-forum-join [at] ontolog.cim3.net> from your subscribing email address, and then follow the instructions you receive back from the mailing list system.
* Our key content pages:
** check out our other mailing lists and [[OpenOntologyRepository|join us]]  
** '''[[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  
* '''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://sandbox.oor.net/ontologies''' (previously http://oor-01.cim3.net/ontologies) ... we are in process to standing up:  
** '''[[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-01.cim3.net - http://dev.oor.net/  
** '''[[OOR_DevBox]]''' - http://oor-01.cim3.net - http://devbox.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  
----
''For the record ...''
== How To Join (while the session is in progress)  ==
* '''1.''' Dial in with a phone or connect through skype: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_11_29#nid2ZEM
* '''2.''' Open chat in a new browser window: http://webconf.soaphub.org/conf/room/oor_20111129
* '''3.''' Download presentations for each speaker here: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_11_29#nid2ZIY
** or, '''3.1''' optionally, [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_11_29#nid2ZEN access our shared-screen vnc server], if you are not behind a corporate firewall
=== [[MeetingsCalls|Conference Call]] Details  ===
* Date: '''Tuesday, 29-Nov-2011'''
* Start Time: 8:30am PST / 11:30am EST / 5:30pm CET / 16:30 UTC
** ref: [http://www.timeanddate.com/worldclock/fixedtime.html?month=11&day=29&year=2011&hour=8&min=30&sec=0&p1=224 World Clock]
* Expected Call Duration: ~1.5 hours
* Dial-in:
** '''Phone (US): +1 (206) 402-0100''' ''(long distance cost may apply)''
*** ... [ backup nbr: (415) 671-4335 ]
** '''Skype: joinconference''' ... ''free-of-charge if you connect through skype from your computer/device with an Internet connection)''
** 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/
** view-only password: "ontolog"
** 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_2011_11_29#nid2ZIY slides]''' (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_20111129
** 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_20111129@soaphub.org ... Handy for mobile devices!
* '''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.)
* Please review our Virtual Session Tips and Ground Rules - see: [[VirtualSpeakerSessionTips]]
* '''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.)
* 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_2011_11_29
* 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]].
== Attendees  ==
* Attended:
** [[User:KennethBaclawski|Ken Baclawski]] (co-chair)
** [[ToddSchneider|Todd Schneider]] (co-chair)
** [[RayFergerson|Ray Fergerson]] (discussant)
** [[PeterYim|Peter P. Yim]] (scribe)
** Gilberto Fragoso (NIH/NCI)
** [[MichaelRiben|Michael Riben]]
** [[MikeDean|Mike Dean]]
** [[CarlosRueda|Carlos Rueda]]
** YefimZhuk
** [[MyCoyne]]
** [[BrianDavis|Brian Davis]]
** Deanna Marino
** [[PaulCourtney|Paul Courtney]]
** [[TrishWhetzel|Trish Whetzel]]
** [[LinePouchard|Line Pouchard]]
** [[EricChan|Eric Chan]]
** [[MikeBennett|Mike Bennett]]
* 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:
** [[TimDarr|Tim Darr]]
** [[MichaelGruninger|Michael Gr&uuml;ninger]]


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

Latest revision as of 07:34, 9 January 2016

Joint NCBO-OOR Workshop: "BioPortal and OOR Synergies" - Tue 29-Nov-2011

Topic: "OOR Architecture & API Workshop-IX: BioPortal & OOR Synergies"

Session Co-chairs: Professor KenBaclawski and Dr. ToddSchneider

Discussant: Dr. Ray Fergerson [ slides ]

Abstract

Topic: "OOR Architecture & API Workshop-IX: BioPortal & OOR Synergies"

This workshop will examine the current differences between BioPortal and OOR requirements and draft architecture and address the plan of action to extend BioPortal to satisfy the OOR requirements.
The session will revolve around the following two subjects:
1. BioPortal - OOR Differences: Current & Future
2. How to extend BioPortal to meet OOR Goals

Agenda Proceedings

Archives:

1. Meeting called to order:

2. Roll Call:

  • welcome and intro of new member(s) (as needed)

3. Key items for review and discussion today:

Topic: "OOR Architecture & API Workshop-IX: BioPortal & OOR Synergies"

3.1 "BioPortal - OOR Differences: Current & Future" - (RayFergerson et al.)

3.2 "How to extend BioPortal to meet OOR Goals" - (All)

  • (ref. suggested) Issues we could discuss at this joint NCBO-OOR session
    • BioPortal's Roadmap or priorities
    • Peter P. Yim: aligning BioPortal & OOR architecture and API to create and maximize synergies
    • clearly identify functionalities that either the NCBO or the OOR development team will be pursuing
      • federation (BBN is happy to contribute their earlier code)
    • which specific "WebTools" package(s) is Paul Alexander using
    • status of export/import/upgrade process for NCBO appliance
    • availability of Java, Ruby, or other client stubs for invoking BioPortal REST services

3.3 Discussion Notes

3.4 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 of chat session --

Peter P. Yim: Welcome to the

Joint NCBO-OOR Workshop: "BioPortal and OOR Synergies" - Tue 29-Nov-2011

Topic: "OOR Architecture & API Workshop-IX: BioPortal & OOR Synergies"

Session Co-chairs: Professor Ken Baclawski and Dr. Todd Schneider

Discussant: Dr. Ray Fergerson

Session page: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_11_29

Phone keypad controls: To un-mute, press "*7" ... To mute, press "*6"

Proceedings:

anonymous morphed into Gilberto Fragoso

Mike Riben: mike riben listening in on skype

Mike Riben: not sure I have a mic

Peter P. Yim: Hi Michael

anonymous morphed into Carlos Rueda

anonymous morphed Deanna Marino

anonymous morphed into Paul Courtney

anonymous morphed into Trish Whetzel

Todd Schneider: For those not familiar with OOR requirements or goals, please ask.

Todd Schneider: OOR high level requirements: Storing, Management, Governance of Ontologies & Related

Items; Discovery / Searching Ontologies; Scalable (Parallelism, Federation); Multi-Language Support;

Arbitrary Knowledge Domain; Platform Independent

anonymous morphed into Line Pouchard

Line Pouchard: Q about searches: it seems that Boolean searches are not supported for term searches.

Are there plans to support this?

Line Pouchard: What does it take to make it a big requirement?

Trish Whetzel: Hi Line - would you like to submit this as a feature request?

Line Pouchard: Sourceforge bug tracking, sounds good, thanks.

Line Pouchard: Trish, yes I would like to.

Trish Whetzel: Ok, I'll submit this as a feature request and as Ray mentioned we'll get this into the

development cycle. If you come across any other feature requests or bug reports, feel free to send

these to our user support mailing list: support@bioontology.org

Todd Schneider: Eric, I see your 'hand' is up. Do you have a question for Ray?

Eric S. Chan: Do you consider using an ontology for reification of notes, discussions, reviews,

etc., that can be attached to the Biomedical Ontology? Peter Yim and I had suggested OASIS ICOM

ontology (http://www.oasis-open.org/committees/download.php/44405/icom-ics-v1.0-csprd02.zip) for

reification of collaborative contents in OOR.

Todd Schneider: Eric, can we ask your question when Ray is done with his presentation?

Eric S. Chan: yes, I can ask the question during the Q/A

Todd Schneider: Ray, don't encourage the use of UML.

Peter P. Yim: @ALL: for everyone's information Michael Gruninger who champions our OOR-Metadata

workshop, is planning one on Dec-13 ... there is plan to invite Harold Solbrig (Mayo) over to talk

about their recent ontology metadata "crosswalk" study, which, among others, included OMV, CTS2. ...

Please mark your calendars ... we'll look forward to having you at the session on Tue 2011.12.13

see development details at: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_12_13

Mike Bennett: On notes and annotations, are the bioportal notes ontology items aligned with or

reusing concepts in SKOS that relate to notes?

Todd Schneider: Mike's query raises an interesting capability, the ability to sufficiently

distinguish the domains covered by a particular ontology repository (to support distributed

queries).

Todd Schneider: Carlos, did you want to ask Ray?

Carlos Rueda: My question is just about a topic already in the agenda: "how to extend BioPortal"

Trish Whetzel: While not limited to ontology repositories, but geared more towards the content of

triple stores, there is an effort to catalog the contents of triple stores via the dbcatalog group,

http://groups.google.com/group/dbcatalog

Peter P. Yim: great session ... thank you, Ray, Todd, Ken and All!

Peter P. Yim: -- session ended: 10:02am PST --

-- end of chat session --

  • Further Question & Remarks - please post them to the [ oor-forum ] listserv
    • if you are already subscribed, post to <oor-forum [at] ontolog.cim3.net>
    • (if you are not yet subscribed) you may subscribe yourself to the [ oor-forum ] listserv listserv, by sending a blank email to <oor-forum-join [at] ontolog.cim3.net> from your subscribing email address, and then follow the instructions you receive back from the mailing list system.

4. Action items:

5. Any Other Business:

6. Schedule Next Meeting & Adjourn:

  • Call adjourned at: 10:02 am PST

--

notes taken by: Peter P. Yim / 2011.11.29-___am PST

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

Resources

For the record ...

How To Join (while the session is in progress)

Conference Call Details

  • Date: Tuesday, 29-Nov-2011
  • Start Time: 8:30am PST / 11:30am EST / 5:30pm CET / 16:30 UTC
  • Expected Call Duration: ~1.5 hours
  • Dial-in:
    • Phone (US): +1 (206) 402-0100 (long distance cost may apply)
      • ... [ backup nbr: (415) 671-4335 ]
    • Skype: joinconference ... free-of-charge if you connect through skype from your computer/device with an Internet connection)
    • 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/
    • view-only password: "ontolog"
    • 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 slides (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_20111129
    • 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_20111129@soaphub.org ... Handy for mobile devices!
  • 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 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. ...



Retrieved from "https://ontologforum.com/index.php?title=OOR/ConferenceCall_2011_11_22&oldid=2110"