OEWG 20090224

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OBO-Edit Working Group, Tuesday February 24th, 2008 9.30 a.m. PST

Conference call details:
US: 1-888-727-6732
Outside US: 1-719-867-3417
pin: 601425


Agenda/Chair: Amina
Minutes: Tanya
Attendees: Amina, Nomi, Chris, Tanya, DavidOS, Jen, Midori, Harold, Karen, Melissa

Action items carried over

1) https://sourceforge.net/tracker2/?func=detail&aid=2561035&group_id=36855&atid=418257

  • As discussed last week - simple ancestor/ descendant searches should not use the reasoner by default - Done. Problem solved.

2) GraphViewer problem - updated tracker item.
https://sourceforge.net/tracker2/index.php?func=detail&aid=2465040&group_id=36855&atid=418257

Quite a bit of discussion:

Chris: reasoner doesn't seem to be doing its job in this Graph Viewer what is 'succinct'? supposed to leave out reasoned links in the is_a path BUT does the opposite!!

David OS: without succinct = bloody mess, with succinct = different but not quite sure what is going on, something usable, has it on by default, not usable (looks broken) without it on - don't make it go away

ACTION ITEM: Amina will look into what 'succinct' does and will change documentation on 'succinct' , including what it is called.

ACTION ITEM: GraphViewer should not need the reasoner to show asserted links, Amina will look into this. Since this is a new feature for OE2, should not hold up the release. Could just label as experimental. DavidOS suggests that 'succinct' be the default because the output with succinct on makes sense while with it off, the result is gibberish.


Tracker items to be reviewed by the Working Group:

== Test using b55 ==

  • b53 does not like emap.obo Closed

https://sourceforge.net/tracker2/?func=detail&aid=2520670&group_id=36855&atid=418257

  • child to a singleparent with more than a single relationship Will lower priority to 5, not a showstopper

https://sourceforge.net/tracker2/?func=detail&aid=2613866&group_id=36855&atid=418257

  • Can't name new relations Closed

https://sourceforge.net/tracker2/index.php?func=detail&aid=2593281&group_id=36855&atid=418257

  • Search has hits but no hitlist (b52) David will test, report back if still a problem

https://sourceforge.net/tracker2/?func=detail&aid=2588958&group_id=36855&atid=418257

  • b54 un-usable with latest fly_anatomy_XP.obo on mac

https://sourceforge.net/tracker2/?func=detail&aid=2585736&group_id=36855&atid=418257

speed issues appear to have been resolved in b-55

DavidOS: b55 is much better than b54 so far - i.e.- hasn't seized up

  • OE exceptionally slow with new regulates links See speed issue resolution above

https://sourceforge.net/tracker2/?func=detail&aid=2611032&group_id=36855&atid=418257

  • beta53 semi-freeze (undo - fix in progress) Will rename to make item more clear

https://sourceforge.net/tracker2/?func=detail&aid=2540383&group_id=36855&atid=418257

ACTION ITEM: Feature request to add new button 'add synonym dbxref' or way to add references from dbxref library to synonyms. Was done before meeting (Midori): https://sourceforge.net/tracker/?func=detail&aid=2355651&group_id=36855&atid=418260

ACTION ITEM: Amina: Investigate why uncommitted text edit window shows up without edits having been done.

ACTION ITEM: Amina: we need to have the load error report back for release (from Melissa)

Discussion items

  • Midori: Testing Update from all working group members
  • OBO-Edit2beta55
  • Configuring the Graph Viewer
  • Java Help Authoring Tool. Needed by members to edit help pages for upcoming release?

ACTION ITEM: Amina will look into open source software. Can be after release. For now, WG members can email docs to Amina and she will integrate into the code.

  • Documentation needs to be updated
    • dictionaries
    • Child Search Aspect
    • Graph Viewer

ACTION ITEM: jamboree session next week or later this week (Thursday, Friday, Feb 26/27) to cover docs

  • OBO-Edit2 official release: March 15th or thereabouts

Chris: no specific comments, not using on a regular basis

Jen: looking pretty good, all components she's tested look great

Midori: nothing major holding up release

It is time for an email announcement (probably send on Friday, the 13th of March). Text: please email by a certain date if you don't think OE2 is ready for release, last call for bug reports, documentation changes, final testing

Karen: full round of testing again? not just the new stuff but old stuff too

Harold: testing same things over and over

Jen: has been testing everything in the components she is responsible for each time.

Amina: probably two more beta releases before official release

Action Items

  • (Amina) Look into what 'succinct' does and will change documentation on 'succinct' , including what it is called.
  • (Amina) GraphViewer should not need the reasoner to show asserted links. Since this is a new feature for OE2, should not hold up the release. Could just label as experimental. DavidOS suggests that 'succinct' be the default because the output with succinct on makes sense while with it off, the result is gibberish.

It's low priority (3) at the moment, but change if you like.

  • (Amina) Investigate why uncommitted text edit window shows up without edits having been done.
  • (Amina) Restore load error report before release (from Melissa)
  • (Amina) Look into open source software. Can be after release. For now, WG members can email docs to Amina and she will integrate into the code.
  • (Somebody) Compose email to be sent out on March 12th.

Links

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