ppy/chat-transcript_unedited_20111018a.txt


Chat transcript from room: oor_20111018
2011-10-18 GMT-08:00


[08:25] PeterYim: Welcome to the

= Open Ontology Repository (OOR) Session - Tue 2011_10_18

Topic: OOR Metadata Workshop-IV

Session Chair: MichaelGruninger  

Session page: http://ontolog.cim3.net/cgi-bin/wiki.pl?OOR/ConferenceCall_2011_10_18

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== Proceedings: ==
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[08:30] anonymous morphed into TimWilson

[08:32] anonymous morphed into TimWilson

[08:33] TimWilson: Hi, this is Tim Wilson. I am having work done in my basement, it is very noisy.

[08:33] MichaelGruninger: I am having trouble connecting by phine

[08:35] Tim Darr: Joining ...

[08:35] PeterYim: are you trying to connect via skype?

[08:35] PeterYim: Michael got in!

[08:37] anonymous1 morphed into Nikkia Anderson

[08:43] ToddSchneider: Michael, What's a 'module'?

[08:46] anonymous morphed into Nikkia Anderson

[08:50] anonymous morphed into AliHashemi

[09:09] ToddSchneider: http://owl.cs.manchester.ac.uk/repository/

[09:10] MichaelGruninger: http://owl.cs.manchester.ac.uk/repository/browser

[09:10] PeterYim: Michael: how ontologies relate to one another elevates OOR from being "just a library of ontologies" (e.g. if you look at TONES from Manchester, that is a large list of ontologies with no interaction between them)

[09:16] AliHashemi: Scenario: Given: Ontology O1 in OWL (in OOR) Ontology O2 in CL (not in OOR) Ontology O3 in CL (in ORR) Declare in OMV: O3 hasImport O1 O3 hasImport O2 O1 hasLanguage OWL O2 hasLanguage CL O3 hasLanguage CL =========== If ontologies are located externally to OOR How do handle this in a workflow tool? Speak to a need to differentiate between Ontologies that are registered (and axioms are available on OOR)

[09:18] TimWilson: *2 to mute your phone.

[09:19] AliHashemi: ORR is a typo meant OOR

[09:20] TimWilson: At my work, ORR is Operational Readiness Review.

[09:20] MichaelGruninger: Using the notion of importing ontologies, there will exist a set of ontologies that are imported by other ontologies but which do not themselves import any others. Such ontologies would be "building block" modules, and we would require them to be registered in the repository.

[09:21] AliHashemi: hasImport --> useImports*

[09:23] TimWilson: Very interesting discussion, but I need to go.

[09:24] PeterYim: There is actually a ORR - the MMI project's Ontology Registry and repository (which is also BioPortal based) - see: http://mmisw.org/orr/#b

[09:25] TerryLongstreth: The notion of imports entrains a responsibility on the part of the OOR services to validate the imported items

[09:27] TerryLongstreth: Once validated, the imported ontology module is presumed to be an invariant

[09:27] ToddSchneider: OOR will automatically parse import statements and check for the presence of the ontologies to be imported in OORs.

[09:27] ToddSchneider: Terry, invariant? With respect to what?

[09:27] TerryLongstreth: With respect to the importing object

[09:28] AliHashemi: If you're building services in the OOR to exploit elements of an ontology, if it is not in (or transparent to) the system you can't really deploy the services

[09:28] TerryLongstreth: If the imported, validated module can change, than everything that imports it can be invalidated

[09:29] AliHashemi: (I've got to run. Bye.)

[09:29] TerryLongstreth: ...at some arbitrary time in the future

[09:31] ToddSchneider: Sorry, but have to go.

[09:42] MichaelGruninger: How does BioPortal capture the notion of different ontology versions and the possibility of new versions being used which are not part of BioPortal?

[09:44] TerryLongstreth: How does Bioportal reflect changes in semantics of medical ideas?

[09:50] KenBaclawski: There are two different notions of import. One can import an ontology with no specification of which version is being imported. One could also have a strict import that requires the imported ontology to be a specific version. One can enforce a strict import by specifying a checksum.

[09:51] MichaelGruninger: Find examples within BioPortal of one ontology importing another ontology, either internal or external to BioPortal

[09:56] PeterYim: MichaelGruninger: at the next workshop, we can put some focus on "versioning"

[09:56] MichaelGruninger: Acion Item (for everyone): find papers on ontology versioning

[10:06] PeterYim: -- session ended: 10:05 am PDT --