Actions

OOR/ConferenceCall 2012 01 17 and OOR/ConferenceCall 2012 01 31: Difference between pages

Ontolog Forum

(Difference between pages)
imported>KennethBaclawski
(Fix PurpleMediaWiki references)
 
imported>KennethBaclawski
(Fix PurpleMediaWiki references)
 
Line 1: Line 1:
= [[OpenOntologyRepository]]: Metadata Workshop-V - Tue 2012_01_17 =
= [[OpenOntologyRepository]]: Architecture & API Workshop-X - Tue 2012_01_31 =


Topic: '''OOR Metadata Workshop-V: Crosswalk between [[OMV]] & [[CTS2]], and other relevant work by the [[NIH]]/[[NCI]]-[[ORWG]]'''  
Topic: "'''OOR Architecture & API Specification Development Workshop-X'''"


Session Chair: '''MichaelGruninger''' (University of Toronto)
Session Co-chairs: '''Dr. [[ToddSchneider|Todd Schneider]] & Professor KenBaclawski'''  
 
Panelists from '''[[NIH]]/[[NCI]] [[ORWG]]''':
 
* '''HaroldSolbrig''' (Mayo Clinic)
* '''[[SherriDeCoronado]]''' (NCI/NIH)
* '''BrianDavis''' (3rd Millennium / Booz Allen Hamilton)
 
== [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/ Archives]  ==
 
* '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_17#nid323O Abstract]'''
* '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_17#nid3248 Agenda & Proceedings]'''  
* '''[http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/OMV-CTS2-Crosswalk--HaroldSolbrig_20120117.pdf Slides]'''
* '''[http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/oor-metadata-05_20120117b.mp3 audio recording of the session]''' [ 1:28:18 ; mp3 ; 10.11 MB  ]  
* '''[http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_17#nid324E Transcript of the online chat session]''' during the panel discussion


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


* Date: '''Tuesday, 17-Jan-2012'''  
* Date: '''Tuesday, 31-Jan-2012'''  
* Start Time: 8:30am PST / 11:30am EST / 5:30pm CET / 16:30 UTC  
* Start Time: 8:30am PST / 11:30am EST / 5:30pm CET / 16:30 UTC  
** ref: [http://www.timeanddate.com/worldclock/fixedtime.html?month=1&day=17&year=2012&hour=8&min=30&sec=0&p1=224 World Clock]  
** ref: [http://www.timeanddate.com/worldclock/fixedtime.html?month=1&day=31&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 hours  


* Dial-in:  
* Dial-in:  
** '''Phone (US): +1 (206) 402-0100''' (long distance cost will apply)  
** '''Phone (US): +1 (206) 402-0100''' ''(long distance cost may apply)''
*** ... ''backup nbr (US): +1 (415) 671-4335''
*** ... [ backup nbr: (415) 671-4335 ]
** '''Skype: joinconference''' ... generally free-of-charge, when connecting from your computer)  
** '''Skype: joinconference''' ... ''free-of-charge if you connect through skype from your computer/device with an Internet connection)''
** when prompted enter '''PIN: 141184#'''  
** when prompted enter '''PIN: 141184#'''  
* '''In-session chat'''-room url: http://webconf.soaphub.org/conf/room/oor_20120117
** 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_20120117@soaphub.org ... Handy for mobile devices!


* '''Shared-screen support''' (VNC session), if applicable, will be started 5 minutes before the call at: http://vnc2.cim3.net:5800/  
* '''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"  
** 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.  
** 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_01_17#nid323L slides above]''' (where applicable) and running them locally. The speaker(s) will prompt you to advance the slides during the talk.  
** people behind corporate firewalls may have difficulty accessing this. If that is the case, please point your browser directly to the '''[http://ontolog.cim3.net/file/work/OOR/oor-dev/BioPortal_Build3253_Nov2011_EA_Model--ToddSchneider_20120130/BioPortal_Build3253_EA_HTML_Report/index.html report]''' (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_20120131
** 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_20120131@soaphub.org ... Handy for mobile devices!


* '''Discussions and Q & A:'''  
* '''Discussions and Q & A:'''  
Line 50: Line 36:
* Please review our Virtual Session Tips and Ground Rules - see: [[VirtualSpeakerSessionTips]]  
* 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_01_17
* '''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]].  
* 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)  
** [[ToddSchneider|Todd Schneider]] (co-chair)  
** [[HaroldSolbrig|Harold Solbrig]]
** [[User:KennethBaclawski|Ken Baclawski]] (co-chair)
** [[SherriDeCoronado]]
** [[BrianDavis|Brian Davis]]  
** [[PeterYim|Peter P. Yim]]  
** [[PeterYim|Peter P. Yim]]  
** [[User:KennethBaclawski|Ken Baclawski]]  
** [[MichaelGruninger|Michael Grüninger]] (has to leave early)  
** [[TomTinsley|Tom Tinsley]]
** [[LiamDGray]]
** [[JamesOdell|James Odell]]
** Rick Kiefer (Mayo)  
** [[GailHodge|Gail Hodge]]
** [[MikeDean|Mike Dean]]  
** [[MikeDean|Mike Dean]]  
** [[MyCoyne]]
** [[AmandaVizedom|Amanda Vizedom]]
** [[PavithraKenjige|Pavithra Kenjige]]
** [[ElisaKendall|Elisa Kendall]]
** [[DeborahMacPherson]]
** [[DeanAllemang|Dean Allemang]]
** Dale Suesse (Mayo)
** [[GilbertoFragoso|Gilberto Fragoso]] ([[NCI]])
** [[ToddSchneider|Todd Schneider]]
** Troy Bleeker (Mayo)
** [[MikeBennett|Mike Bennett]]


* Also registered, but who may have joined us after the roll call:  
* Expecting:  
** [[SylvereKrima|Sylvere Krima]]
*   
*   
** ... ''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:  
** [[SanfordFriedenthal|Sanford Friedenthal]]  
** [[TimDarr|Tim Darr]]
** [[MikeBennett|Mike Bennett]]
** [[LeoObrst|Leo Obrst]]  


== Abstract  ==
=== Session Abstract & Resources ===


Topic: '''OOR Metadata Workshop-V: Crosswalk between [[OMV]] & [[CTS2]], and other relevant work by the [[NIH]]/[[NCI]]-[[ORWG]]'''
With this workshop we'll start reviewing the [[BioPortal]] build 3253 source code (from November 2011) to see how it fits into the current OOR (draft) architecture and identify changes or additions that need to made to the source code or the architecture.


Folks from the NIH/NCI-ORWG team will be presenting results from their crosswalk between OMV and CTS2 exercise, as well as other pertinent work relating to metadata.  
The review will be based on an HTML report from the Enterprise Architect (EA) UML model of the (reverse engineered) [[BioPortal]] source code build 3253 (circa November 2011).  


In particular, see ...  
The EA HTML report can be found at
http://ontolog.cim3.net/file/work/OOR/oor-dev/BioPortal_Build3253_Nov2011_EA_Model--ToddSchneider_20120130/BioPortal_Build3253_EA_HTML_Report/index.html


HaroldSolbrig's recent mapping of [[OMV]] to [[CTS2]]; where the results can be found at: http://informatics.mayo.edu/cts2/index.php/CTS2_and_OMV
See also: '''[[OpenOntologyRepository_Architecture]]''' & '''[[OpenOntologyRepository_Architecture/Candidate03]]'''
Harold referred to an analysis Stuart Turner had done examining whether <nowiki>RxNorm</nowiki> (as specific instance of a terminology) actually has the metadata as outlined by OMV and that analysis is at: https://wiki.nci.nih.gov/display/VCDE/OMV+Metadata+for+RxNorm


After the presentation from the [[ORWG]] team, we will have an open discussion to compare notes and insights on various aspects of metadata as related to their use in ontology repositories.  
In addition, there is an API of the core services that was obtained from anearlier implementation [[BioPortal]], which is not entirely compatible with the straw man architecture, but furnishes a starting point. This API will also be discussed and modified as needed.  


[[SherriDeCoronado]] has mapped [[NCBO]] to [[OMV]] to OMV+ (the ontology representation working group's ([[ORWG]]'s) ad hoc, temporary name for the version/extension to OMV), which can be found at: https://wiki.nci.nih.gov/pages/viewpage.action?pageId=53020090
* Here is the API expressed in WSDL: http://www.ccs.neu.edu/home/kenb/oor/OORService.wsdl
* Here is the API expressed in Java: http://www.ccs.neu.edu/home/kenb/oor/OORI.java


== References  ==
Finally, we need to agree on a plan for completing the development of the specification.


* 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
Here is the proposed organizing plan: '''[[OpenOntologyRepository_Architecture/GettingOrganized]]'''  
* 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]'''
* 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
* Common Terminology Services 2 ([[CTS2]])
** "OMV/CTS2 Crosswalk" talk by [[HaroldSolbrig|Harold Solbrig]] - [[OOR/ConferenceCall_2012_01_17]]
** http://www.omg.org/spec/CTS2/
** http://wiki.hl7.org/index.php?title=CTS2
* [[OpenOntologyRepository_Architecture]]
* [[OpenOntologyRepository_UseCases]] - http://www.ccs.neu.edu/home/kenb/ontologies/


== Agenda & Proceedings  ==
We encourage all participants to update your candidate contributions to ensure your ideas are known and understood.


1. Meeting called to order ... opening, participants' self-introductions. (~10 min.)
The following are relevant prior meetings:


2. introduction of the panel - chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] (~5 min.)  
* Architecture & API Specification Development Workshop-X - [[OOR/ConferenceCall_2012_01_31]]'' (this session)''
* Joint NCBO-OOR Session - "OOR Architecture & API Workshop-IX: [[BioPortal]] & OOR Synergies" - [[OOR/ConferenceCall_2011_11_29]]
* Architecture & API Specification Development Workshop-VIII - [[OOR/ConferenceCall_2011_10_11]]
* Architecture & API Specification Development Workshop-VII - [[OOR/ConferenceCall_2011_09_20]]
* Kicking-off the Next Phase of OOR-NCBO Collaboration - [[OOR/ConferenceCall_2011_09_13]]
* Architecture & API Specification Development Workshop-VI - [[OOR/ConferenceCall_2011_06_17]]
* Architecture & API Specification Development Workshop-V - [[OOR/ConferenceCall_2011_05_20]]
* Architecture & API Specification Development Workshop-IV - [[OOR/ConferenceCall_2011_04_22]]
* Architecture & API Specification Development Workshop-III - [[OOR/ConferenceCall_2011_03_25]]
* Architecture & API Specification Development Workshop-II - [[OOR/ConferenceCall_2011_03_11]]
* Architecture & API Specification Development Workshop-I - [[OOR/ConferenceCall_2011_03_04]]
* [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_02_04#nid2MIV 2011.02.04 discussion]
* 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]]
* 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]]


3. Presentation of the subject NIH/NCI-ORWG work - [[HaroldSolbrig|Harold Solbrig]] (~30 min.) ... [ [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_17#nid323L slides] ]
== Agenda Ideas  ==


4. Additional remarks from the rest of the panel - [[SherriDeCoronado]] & [[BrianDavis|Brian Davis]] (10~15 min.)
* walk-thru of the (reverse engineered)(EA) UML model of the [[BioPortal]] source
code build 3253 (circa November 2011)
* go back-and-forth with the ongoing stock "OOR Architecture & API" discussions, namely ...  
** the OOR Architecture
** the OOR API
** the Organizing Plan
** the default development platform


5. Q & A and Open discussion (~30 min.) ... (ref. [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_17#nid316T process above])
== Agenda & Proceedings  ==


6. Wrap-up: Announcements and Follow-up actions (where applicable) - chair: [[MichaelGruninger|Michael Gr&uuml;ninger]]
[http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-Architecture/OOR-Architecture-API-workshop/ Archives]:  


== Transcript of the online chat during the session ==
* [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-Architecture/OOR-Architecture-API-workshop/OOR_Architecture-API-workshop-X_20120131b.mp3 Audio archive of the session] ... [ 1:42:19 ; mp3 ; 11.71 ]
* [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_31#nid33QN Chat transcript of the session] ... [ [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-Architecture/OOR-Architecture-API-workshop/oor-call_chat-transcript_unedited_20120131a.txt raw] ] . [ [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-Architecture/OOR-Architecture-API-workshop/oor-call_chat-transcript_edited_20120131b.txt edited] ]


see raw transcript [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/oor-metadata-05_chat-transcript_unedited_20120117a.txt here].
1. Meeting called to order:  


(for better clarity, the version below is a [http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/oor-metadata-05_chat-transcript_edited_20120117b.txt re-organized and lightly edited chat-transcript].)
* [[ToddSchneider|Todd Schneider]] & [[User:KennethBaclawski|Ken Baclawski]] took the chair and welcome everyone


Participants are welcome to make light edits to their own contributions as they see fit.
* [[PeterYim|Peter P. Yim]] volunteered to keep a record of the proceedings


-- begin in-session chat-transcript --
* review and adopt agenda


[[PeterYim|Peter P. Yim]]: Welcome to the
2. Roll Call & Adoption of last meeting's minutes:  


''' [[OpenOntologyRepository]]: Metadata Workshop-V - Tue 2012_01_17 '''
* see [http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_31#nid33NZ above]
* introduction of new members (as required)
* review of agenda


Topic: OOR Metadata Workshop-V: Crosswalk between OMV & CTS2,
3. '''Key items for review and discussion''' today:  


and other relevant work by the NIH/NCI-ORWG
* Announcements and Urgent Matters:


Session Chair: [[MichaelGruninger|Michael Gr&uuml;ninger]] (University of Toronto)  
* review of the reversed engineering [[BioPortal]] build 3253 (circa Nov-2011) UML model


Panelists from NIH/NCI ORWG: * [[HaroldSolbrig|Harold Solbrig]] (Mayo Clinic) * [[SherriDeCoronado]] (NCI/NIH) * [[BrianDavis|Brian Davis]]  
* discuss our plans referencing the updated [[BioPortal]] implementation


(3rd Millennium / Booz Allen Hamilton)
* status review of our infrastructure and development resources and platform


Session page: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_17
''... items below are mostly from the previous workshop, and will be updated as this session progresses.''


Mute control: *7 to un-mute ... *6 to mute
* Review of action item(s) from the previous meeting(s)
* from 2011.06.17 - [[MichaelGruninger|Michael Gr&uuml;ninger]] will examine the OMV to determine which attributes are required and which are optional.  
* from 2011.06.17 - [[User:KennethBaclawski|Ken Baclawski]] will send KEEPER (the gatekeeping software) to [[ToddSchneider|Todd Schneider]] who will generate the UML.


Can't find Skype Dial pad? ... it's under the "Call" dropdown menu as "Show Dial pad"  
* '''"OOR Architecture & API Specification Development Workshop-VIII:"''' ([http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-Architecture/OOR-Architecture-API-workshop/ Archives])


. == Proceedings: == .  
* Gatekeeping specifies the a set of minimal requirements that any ontology within the OOR has to meet. The latter are intended to enable the users of the OOR to find quickly ontologies that fit their needs; the criteria are not supposed to ensure the quality of the ontologies.
** Each OOR instance declares what ontology languages it supports.
** Every OOR instance MUST support RDFS.
*** This is required because the metadata is expressed in OMV.
*** OMV is written in OWL, but it may be sufficient to require only RDFS. This needs to be investigated.
** Other ontology languages MAY be supported.
** For each metadata attribute, it will be specified whether it is required or optional.
*** It MUST be specified whether the ontology is available (or to be available in the future).
*** The ontology language MUST be specified.
*** Other attributes will be handled offline by [[MichaelGruninger|Michael Gr&uuml;ninger]] based on the OMV specification.
** An ontology must satisfy other requirements depending on the ontology language.
*** Syntax checking is always required.
*** Consistency checking is required with some time limit.  


anonymous morphed into [[HaroldSolbrig|Harold Solbrig]]
* Proposal for Partition of Components
** Presentation
*** A minimal presentation module with just search and workflow
*** Browse (already in BioPortal-based sandbox)
*** Search (already in BioPortal-based sandbox)
*** Mapping (already in BioPortal-based sandbox)
*** Recommender (already in BioPortal-based sandbox)
*** Annotator (already in BioPortal-based sandbox)
*** Resource Index (already in BioPortal-based sandbox)
*** Workflow Administration
*** OOR Instance Administration
*** Other windows
** Workflow
*** Already developed, but needs to be documented
** Registrar
*** A minimal registrar
** Find
*** Initially adapt a SPARQL endpoint. Which one?
** Inference
*** Initially a part of the SPARQL endpoint
*** Other inference engines
** Persistence
*** Initially adapt 4Store
** Administration
*** TBD
** Federation
*** TBD


anonymous morphed into [[LiamDGray]]
* '''Chat transcript of this session:'''


anonymous morphed into [[TomTinsley|Tom Tinsley]]
--- Chat transcript begin: ---


anonymous morphed into [[RickKiefer|Rick Kiefer]]  
[[PeterYim|Peter P. Yim]]: Welcome to the


[[MyCoyne]]: How do I indicate other people in the same room with me?
= [[OpenOntologyRepository]]: Architecture & API Workshop-X - Tue 2012_01_31 =


AmandaVizedom1 morphed into [[AmandaVizedom|Amanda Vizedom]]
Topic: "OOR Architecture & API Specification Development Workshop-X"


anonymous morphed into [[GilbertoFragoso|Gilberto Fragoso]]  
Session Co-chairs: Dr. [[ToddSchneider|Todd Schneider]] & Professor [[User:KennethBaclawski|Ken Baclawski]]  


anonymous morphed into Sherri de Coronado
Conference Call Details:


anonymous2 morphed into Troy Bleeker (Mayo)
* Date: Tuesday, 31-Jan-2012


anonymous1 morphed into Dale Suesse
* Start Time: 8:30am PST / 11:30am EST / 5:30pm CET / 16:30 UTC


anonymous morphed into [[JamesOdell|James Odell]]
* Expected Call Duration: ~1.5 hours


[[RickKiefer|Rick Kiefer]]: Harold is unable to connect to vpn. Please reference this copy of the slides -  
Session page: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_31


http://ontolog.cim3.net/file/work/OpenOntologyRepository/OOR-metadata-workshop/OMV-CTS2-Crosswalk--HaroldSolbrig_20120117.pdf
Can't find Skype Dial pad? ... it's under the "Call" dropdown menu as "Show Dial pad"
 
anonymous morphed into [[DeanAllemang|Dean Allemang]]
 
[[MichaelGruninger|Michael Gr&uuml;ninger]]: Note that we are now on slide 21 (not 26 as Harold just said)
 
[[PeterYim|Peter P. Yim]]: @MyCoyne - please post (on this chat space) the names of people who are with you now, if


you please - I'll capture that into the attendees roster later.  
.


[[JamesOdell|James Odell]]: OK
== Proceedings: ==


[[DeanAllemang|Dean Allemang]]: Darn! My call just dropped. I was interested in understanding how CTS2 versions works
.  


with OWL2 versioning. The call dropped while he was explaining this.  
[[PeterYim|Peter P. Yim]]: The EA HTML report Todd has just produced can be found at http://ontolog.cim3.net/file/work/OOR/oor-dev/BioPortal_Build3253_Nov2011_EA_Model--ToddSchneider_20120130/BioPortal_Build3253_EA_HTML_Report/index.html


[[PeterYim|Peter P. Yim]]: @Dean - hope you can call back in
Todd: ref. http://ontolog.cim3.net/file/work/OOR/oor-dev/


[[PeterYim|Peter P. Yim]]: on slide#54 now
[[ToddSchneider|Todd Schneider]]: http://ontolog.cim3.net/file/work/OOR/oor-dev/BioPortal_Build3253_Nov2011_EA_Model--ToddSchneider_20120130/


[[PeterYim|Peter P. Yim]]: on slide#55 [9:31am PST]
Todd: the xml file is at: http://ontolog.cim3.net/file/work/OOR/oor-dev/BioPortal_Build3253_Nov2011_EA_Model--ToddSchneider_20120130/BioPortal_Build3253_Nov2011_EA_Model.xml


[[DeanAllemang|Dean Allemang]]: I made it back in a minute later, but that was too late for this discussion
Todd / Ken: ref. MikeDean's question: "are javadoc's available?" ... answer: seemingly "no!"


[[PeterYim|Peter P. Yim]]: @Dean - we'll have some time for Q&A and open discussion
[[PeterYim|Peter P. Yim]]: [consensus] our approach toward code contribution (/extension from the [[BioPortal]] codebase):


[[DeanAllemang|Dean Allemang]]: that's right
(a) KenBaclawski-ToddSchneider to focus on "gatekeeping";


[[DeanAllemang|Dean Allemang]]: and those versions are all related together according to the OWL2 standard?
(b) [[MikeDean|Mike Dean]] on "federation", and  


[[DeanAllemang|Dean Allemang]]: that's right
(c) [[MichaelGruninger|Michael Gr&uuml;ninger]] on "metadata" then "mapping"


[[DeanAllemang|Dean Allemang]]: even in production, that can be a problem
[[ToddSchneider|Todd Schneider]]: Action Plan: Michael and his team will focus on metadata (and then mapping); Mike Dean will focus on federation capabilities; Ken and Todd will focus on workflow


[[DeanAllemang|Dean Allemang]]: thanks
[[MikeDean|Mike Dean]]: like idea of an OOR service layer that includes OOR-specific services (e.g.  Find) and


[[ToddSchneider|Todd Schneider]]: A question: How did use of REST help?
can be easily adapted to new [[BioPortal]] releases


[[HaroldSolbrig|Harold Solbrig]]: @Todd - identifying the resources, assigning identity, determining which
[[PeterYim|Peter P. Yim]]: as far as ncbo-RayFergerson is concerned, he'd appreciate all code extensions to be implemented on "tabs"


characteristics are key vs. accidental was one aspect.
[[MikeDean|Mike Dean]]: it's easy to add new tabs to the UI


[[HaroldSolbrig|Harold Solbrig]]: The second was the removal of dependencies - our earlier models had containment models
[[MikeDean|Mike Dean]]: http://palexander.posterous.com/extending-bioportals-rails-ui


[[ToddSchneider|Todd Schneider]]: Harold, thank you.
[[ToddSchneider|Todd Schneider]]: The three 'action items' will have there own tabs: adjuncts to the current [[BioPortal]] UI


[[HaroldSolbrig|Harold Solbrig]]: COde systems "contained" definitions. REST made us refactor into "Class describedInVersion"
[[ToddSchneider|Todd Schneider]]: Need to find out if [[BioPortal]] data model supports 'location' (i.e., repository location/id) information


[[HaroldSolbrig|Harold Solbrig]]: Especially important as in the Semantic Web world, Class to ontologyVersion is n..m
[[ToddSchneider|Todd Schneider]]: How will access control across federates be handled?


[[ToddSchneider|Todd Schneider]]: Harold, could you remind me of the definition of 'code system'?
[[ToddSchneider|Todd Schneider]]: There may be additional fields from OMV that OOR will need.


[[MyCoyne]]: Where do I get Sherri's presentation, please?  
[[ToddSchneider|Todd Schneider]]: Can the OMV interface be generated dynamically from the OMV ontology? This may break some existing [[BioPortal]] code.


[[HaroldSolbrig|Harold Solbrig]]: Code set, classification system, thesaurus, ontology, glossary
[[ToddSchneider|Todd Schneider]]: Each of items of the 'action plan' will be added as a new tab (on the current UI).


[[MikeBennett|Mike Bennett]]: With terminology you've also got the whole ISO 1087 / SBVR world of terms.
[[ToddSchneider|Todd Schneider]]: The federation tab will be labeled 'Federation' (this may only be visible to administrators);


[[HaroldSolbrig|Harold Solbrig]]: @Todd - some people use "Ontology" to represent all of those things, but then you
The workflow tab will initially expose the uploading capability of the gatekeeper functionality.


need a different term for small "ontology"
Other gatekeeper capabilities/functionalities will be exposed on other tabs.


[[ToddSchneider|Todd Schneider]]: Harold, got it. Short memory span.  
[[ToddSchneider|Todd Schneider]]: Another action item is to agree on tab labels for the 'upload' and 'metadata' tabs.  


[[PeterYim|Peter P. Yim]]: @MyCoyne - Sherri doesn't have slides, she is introducing the ORWG and their work - see:
[[PeterYim|Peter P. Yim]]: [action] targeting this - Mike, Ken & Michael will all try to have a prototype tab


https://wiki.nci.nih.gov/display/VCDE/Ontology+Representation+WG
(even just a "hello world" tab) done by our next workshop


[[ToddSchneider|Todd Schneider]]: Some people don't understand many things.
[[User:KennethBaclawski|Ken Baclawski]]: Subject: [oor-dev] Problem with extending the UI


[[ToddSchneider|Todd Schneider]]: Harold, how would you see CTS2 fitting into the OOR architecture?
I am trying to extend the [[BioPortal]] Rails UI on oor-03 using


[[HaroldSolbrig|Harold Solbrig]]: The number of things that I don't understand is infinite.  
http://palexander.posterous.com/extending-bioportals-rails-ui


[[ToddSchneider|Todd Schneider]]: Harold, you have a start - a rough metric
It seems one must use


[[HaroldSolbrig|Harold Solbrig]]: CTS2 could serve as one of the REST (and, perhaps SOAP) API's to allow federation and sharing.
<nowiki>cd [[OOR/ConferenceCall_2012_01_31/srv/ncbo/rails/BioPortal/current</nowiki>]]


[[HaroldSolbrig|Harold Solbrig]]: The advantage being that you don't necessarily HAVE to absorb everything.
rather than


[[HaroldSolbrig|Harold Solbrig]]: You can reference other catalogs elsewhere on the net.
<nowiki>cd [[OOR/ConferenceCall_2012_01_31/var/rails/BioPortal/current</nowiki>]]


[[ToddSchneider|Todd Schneider]]: Ken, do you see using something like CTS2 as part of the workflow engine?
There is a script/generate, but when I try running it, I get


[[ToddSchneider|Todd Schneider]]: A goal of the OOR architecture is provide a specification (in the sense that Harold described).
/usr/bin/env: ruby: No such file or directory


[[ToddSchneider|Todd Schneider]]: Harold, did I understand you correctly that the CTS2 specification is not publicly
Does anyone have some idea of how this can be fixed?


available yet?
-- Ken


[[HaroldSolbrig|Harold Solbrig]]: @Todd - public. Available from the OMG site or the CTS2 URL I sent. Again, a bit
[[PeterYim|Peter P. Yim]]: Ken has fired the above question to Paul Alexander - http://ontolog.cim3.net/forum/oor-dev/2012-01/msg00016.html


opaque and being clarified...  
[[PeterYim|Peter P. Yim]]: [[MikeDean|Mike Dean]] gave a brief report on the SOCoP-OOR at the INTEROP NSF PI meeting


[[DeborahMacPherson]]: Great Presentation! Got a lot from it - thanks - need to take off for another
[[ToddSchneider|Todd Schneider]]: Can we pose a question to [[BioPortal]] to see if they would be open to moving


conference call.
the 'Submit New Ontology' functionality to a new tab, called 'Submit'?


[[User:KennethBaclawski|Ken Baclawski]]: @Todd - it is not part of the workflow engine. The workflow engine is configurable so
[[ToddSchneider|Todd Schneider]]: Have to go.  


it should be possible to specify CTS2 as one possible workflow.  
[[User:KennethBaclawski|Ken Baclawski]]: I will continue to find out how to fix the captcha feature. Until it is fixed, captcha is off.  


[[ToddSchneider|Todd Schneider]]: We should consider the use of CTS2 in the OOR for terminology mediation.
[[PeterYim|Peter P. Yim]]: who is anonymous?


[[ToddSchneider|Todd Schneider]]: Harold, thank you for an excellent presentation. Have to go.
[[PeterYim|Peter P. Yim]]: let's talk about the next workshops at next Tuesday's regular OOR team meeting


[[HaroldSolbrig|Harold Solbrig]]: Thanks. I'm going to have to go in about 2 minutes as well.
[[PeterYim|Peter P. Yim]]: [[MikeDean|Mike Dean]]: I'll probably be missing next week's meeting, because i'll be traveling


[[PeterYim|Peter P. Yim]]: great session, thanks everyone!  
[[PeterYim|Peter P. Yim]]: good meeting ... got a lot done ... bye!  


[[MikeBennett|Mike Bennett]]: Thanks all!
[[PeterYim|Peter P. Yim]]: -- session ended: 10:14am PST --


[[PeterYim|Peter P. Yim]]: -- session ended 10:06am PST --  
--- Chat transcript end: ---  


-- end of in-session chat-transcript --
'''Consensus, Conclusions & Follow-up Actions:'''


6.1 Any Other Business:  
4. '''Any Other Business:'''


6.2 Action items:  
5. '''Action items:'''


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


* Next Meeting:  
* Next Meeting:  
** this coming Thu 2012.01.19 - [[OntologySummit2012|Ontology Summit 2012]] session-02: "Ontology for Big Systems: What's In Scope" - see: ConferenceCall_2012_01_19
** Regular OOR team meeting next week - Tue 2012.02.07 same time - [[OOR/ConferenceCall_2012_02_07]]
** no OOR meeting on Tue 2012.01.24
*** [[MikeDean|Mike Dean]]: I'll probably have to miss that meeting, as I will be traveling.  
** then the "OOR Architecture & API Workshop-X" on Tue 2012.01.31
** we'll plan other events at that meeting  
** after that, we will be having our next regular OOR-team meeting on Tue 2012.02.07


* Call adjourned at: 10:06 am PST  
* Call adjourned at: 10:14 am PST  


--
--


notes taken by: [[PeterYim|Peter P. Yim]] / 2012.01.17-10:27am PST
notes taken by: [[PeterYim|Peter P. Yim]] / 2012.01.31-11:01am 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.  

Latest revision as of 07:34, 9 January 2016

OpenOntologyRepository: Architecture & API Workshop-X - Tue 2012_01_31

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

Session Co-chairs: Dr. Todd Schneider & Professor KenBaclawski

Conference Call Details

  • Date: Tuesday, 31-Jan-2012
  • 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 point your browser directly to the report (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_20120131
    • 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_20120131@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. ...

Session Abstract & Resources

With this workshop we'll start reviewing the BioPortal build 3253 source code (from November 2011) to see how it fits into the current OOR (draft) architecture and identify changes or additions that need to made to the source code or the architecture.

The review will be based on an HTML report from the Enterprise Architect (EA) UML model of the (reverse engineered) BioPortal source code build 3253 (circa November 2011).

The EA HTML report can be found at http://ontolog.cim3.net/file/work/OOR/oor-dev/BioPortal_Build3253_Nov2011_EA_Model--ToddSchneider_20120130/BioPortal_Build3253_EA_HTML_Report/index.html

See also: OpenOntologyRepository_Architecture & OpenOntologyRepository_Architecture/Candidate03

In addition, there is an API of the core services that was obtained from anearlier implementation BioPortal, which is not entirely compatible with the straw man architecture, but furnishes a starting point. This API will also be discussed and modified as needed.

Finally, we need to agree on a plan for completing the development of the specification.

Here is the proposed organizing plan: OpenOntologyRepository_Architecture/GettingOrganized

We encourage all participants to update your candidate contributions to ensure your ideas are known and understood.

The following are relevant prior meetings:

Agenda Ideas

  • walk-thru of the (reverse engineered)(EA) UML model of the BioPortal source

code build 3253 (circa November 2011)

  • go back-and-forth with the ongoing stock "OOR Architecture & API" discussions, namely ...
    • the OOR Architecture
    • the OOR API
    • the Organizing Plan
    • the default development platform

Agenda & Proceedings

Archives:

1. Meeting called to order:

  • Peter P. Yim volunteered to keep a record of the proceedings
  • review and adopt agenda

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

  • see above
  • introduction of new members (as required)
  • review of agenda

3. Key items for review and discussion today:

  • Announcements and Urgent Matters:
  • review of the reversed engineering BioPortal build 3253 (circa Nov-2011) UML model
  • discuss our plans referencing the updated BioPortal implementation
  • status review of our infrastructure and development resources and platform

... items below are mostly from the previous workshop, and will be updated as this session progresses.

  • Review of action item(s) from the previous meeting(s)
  • from 2011.06.17 - Michael Grüninger will examine the OMV to determine which attributes are required and which are optional.
  • from 2011.06.17 - Ken Baclawski will send KEEPER (the gatekeeping software) to Todd Schneider who will generate the UML.
  • "OOR Architecture & API Specification Development Workshop-VIII:" (Archives)
  • Gatekeeping specifies the a set of minimal requirements that any ontology within the OOR has to meet. The latter are intended to enable the users of the OOR to find quickly ontologies that fit their needs; the criteria are not supposed to ensure the quality of the ontologies.
    • Each OOR instance declares what ontology languages it supports.
    • Every OOR instance MUST support RDFS.
      • This is required because the metadata is expressed in OMV.
      • OMV is written in OWL, but it may be sufficient to require only RDFS. This needs to be investigated.
    • Other ontology languages MAY be supported.
    • For each metadata attribute, it will be specified whether it is required or optional.
      • It MUST be specified whether the ontology is available (or to be available in the future).
      • The ontology language MUST be specified.
      • Other attributes will be handled offline by Michael Grüninger based on the OMV specification.
    • An ontology must satisfy other requirements depending on the ontology language.
      • Syntax checking is always required.
      • Consistency checking is required with some time limit.
  • Proposal for Partition of Components
    • Presentation
      • A minimal presentation module with just search and workflow
      • Browse (already in BioPortal-based sandbox)
      • Search (already in BioPortal-based sandbox)
      • Mapping (already in BioPortal-based sandbox)
      • Recommender (already in BioPortal-based sandbox)
      • Annotator (already in BioPortal-based sandbox)
      • Resource Index (already in BioPortal-based sandbox)
      • Workflow Administration
      • OOR Instance Administration
      • Other windows
    • Workflow
      • Already developed, but needs to be documented
    • Registrar
      • A minimal registrar
    • Find
      • Initially adapt a SPARQL endpoint. Which one?
    • Inference
      • Initially a part of the SPARQL endpoint
      • Other inference engines
    • Persistence
      • Initially adapt 4Store
    • Administration
      • TBD
    • Federation
      • TBD
  • Chat transcript of this session:

--- Chat transcript begin: ---

Peter P. Yim: Welcome to the

OpenOntologyRepository: Architecture & API Workshop-X - Tue 2012_01_31

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

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

Conference Call Details:

  • Date: Tuesday, 31-Jan-2012
  • Start Time: 8:30am PST / 11:30am EST / 5:30pm CET / 16:30 UTC
  • Expected Call Duration: ~1.5 hours

Session page: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2012_01_31

Can't find Skype Dial pad? ... it's under the "Call" dropdown menu as "Show Dial pad"

.

Proceedings:

.

Peter P. Yim: The EA HTML report Todd has just produced can be found at http://ontolog.cim3.net/file/work/OOR/oor-dev/BioPortal_Build3253_Nov2011_EA_Model--ToddSchneider_20120130/BioPortal_Build3253_EA_HTML_Report/index.html

Todd: ref. http://ontolog.cim3.net/file/work/OOR/oor-dev/

Todd Schneider: http://ontolog.cim3.net/file/work/OOR/oor-dev/BioPortal_Build3253_Nov2011_EA_Model--ToddSchneider_20120130/

Todd: the xml file is at: http://ontolog.cim3.net/file/work/OOR/oor-dev/BioPortal_Build3253_Nov2011_EA_Model--ToddSchneider_20120130/BioPortal_Build3253_Nov2011_EA_Model.xml

Todd / Ken: ref. MikeDean's question: "are javadoc's available?" ... answer: seemingly "no!"

Peter P. Yim: [consensus] our approach toward code contribution (/extension from the BioPortal codebase):

(a) KenBaclawski-ToddSchneider to focus on "gatekeeping";

(b) Mike Dean on "federation", and

(c) Michael Grüninger on "metadata" then "mapping"

Todd Schneider: Action Plan: Michael and his team will focus on metadata (and then mapping); Mike Dean will focus on federation capabilities; Ken and Todd will focus on workflow

Mike Dean: like idea of an OOR service layer that includes OOR-specific services (e.g. Find) and

can be easily adapted to new BioPortal releases

Peter P. Yim: as far as ncbo-RayFergerson is concerned, he'd appreciate all code extensions to be implemented on "tabs"

Mike Dean: it's easy to add new tabs to the UI

Mike Dean: http://palexander.posterous.com/extending-bioportals-rails-ui

Todd Schneider: The three 'action items' will have there own tabs: adjuncts to the current BioPortal UI

Todd Schneider: Need to find out if BioPortal data model supports 'location' (i.e., repository location/id) information

Todd Schneider: How will access control across federates be handled?

Todd Schneider: There may be additional fields from OMV that OOR will need.

Todd Schneider: Can the OMV interface be generated dynamically from the OMV ontology? This may break some existing BioPortal code.

Todd Schneider: Each of items of the 'action plan' will be added as a new tab (on the current UI).

Todd Schneider: The federation tab will be labeled 'Federation' (this may only be visible to administrators);

The workflow tab will initially expose the uploading capability of the gatekeeper functionality.

Other gatekeeper capabilities/functionalities will be exposed on other tabs.

Todd Schneider: Another action item is to agree on tab labels for the 'upload' and 'metadata' tabs.

Peter P. Yim: [action] targeting this - Mike, Ken & Michael will all try to have a prototype tab

(even just a "hello world" tab) done by our next workshop

Ken Baclawski: Subject: [oor-dev] Problem with extending the UI

I am trying to extend the BioPortal Rails UI on oor-03 using

http://palexander.posterous.com/extending-bioportals-rails-ui

It seems one must use

cd [[OOR/ConferenceCall_2012_01_31/srv/ncbo/rails/BioPortal/current]]

rather than

cd [[OOR/ConferenceCall_2012_01_31/var/rails/BioPortal/current]]

There is a script/generate, but when I try running it, I get

/usr/bin/env: ruby: No such file or directory

Does anyone have some idea of how this can be fixed?

-- Ken

Peter P. Yim: Ken has fired the above question to Paul Alexander - http://ontolog.cim3.net/forum/oor-dev/2012-01/msg00016.html

Peter P. Yim: Mike Dean gave a brief report on the SOCoP-OOR at the INTEROP NSF PI meeting

Todd Schneider: Can we pose a question to BioPortal to see if they would be open to moving

the 'Submit New Ontology' functionality to a new tab, called 'Submit'?

Todd Schneider: Have to go.

Ken Baclawski: I will continue to find out how to fix the captcha feature. Until it is fixed, captcha is off.

Peter P. Yim: who is anonymous?

Peter P. Yim: let's talk about the next workshops at next Tuesday's regular OOR team meeting

Peter P. Yim: Mike Dean: I'll probably be missing next week's meeting, because i'll be traveling

Peter P. Yim: good meeting ... got a lot done ... bye!

Peter P. Yim: -- session ended: 10:14am PST --

--- Chat transcript end: ---

Consensus, Conclusions & Follow-up Actions:

4. Any Other Business:

5. Action items:

6. Schedule Next Meeting & Adjourn:

  • Next Meeting:
    • Regular OOR team meeting next week - Tue 2012.02.07 same time - OOR/ConferenceCall_2012_02_07
      • Mike Dean: I'll probably have to miss that meeting, as I will be traveling.
    • we'll plan other events at that meeting
  • Call adjourned at: 10:14 am PST

--

notes taken by: Peter P. Yim / 2012.01.31-11:01am PST

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
    • 2011_12_15 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-3: "ISO/IEC 24707 Common Logic and IKL" - Co-chairs: Michael Grüninger & John Bateman - ConferenceCall_2011_12_15



Retrieved from "https://ontologforum.com/index.php?title=OOR/ConferenceCall_2012_01_17&oldid=2116"