OEWG 20090602: Difference between revisions
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** DOS comment: | |||
*** I like this suggestion. It should allow easy filtering of any new fields that are problematic to FlyBase. I would also provide a fix for this feature request: https://sourceforge.net/tracker/?func=detail&aid=2305635&group_id=36855&atid=418260 | |||
** Chris's comment: | ** Chris's comment: | ||
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* Request for info ( | * Request for info (DOS): At the Buffalo workshop, I'd like to present both GO and FBbt approaches to working with XPs. | ||
** I would therefore like a practical guide to how GO are managing XPs and instantiating links implied using them. | ** I would therefore like a practical guide to how GO are managing XPs and instantiating links implied using them. | ||
Revision as of 10:52, 2 June 2009
OBO-Edit Working Group, Tuesday June 2nd, 2009 9.30 a.m. PST
Conference call details:
US: 1-888-727-6732
Outside US: 1-719-867-3417
pin: 601425
Agenda/Chair: DavidOS
Minutes: Midori
Attendees:
Action items carried over
Amina
- Lock Layout option - Done
- Fix logging location for OSX in 2.1
- Investigate verification check issues on a fresh install
- Graph Editor Crashes
- https://sourceforge.net/tracker/?func=detail&aid=2747794&group_id=36855&atid=418257
- warning before GE crashes or look into making Graph Editor quit instead of crashing the application
- https://sourceforge.net/tracker/?func=detail&aid=2747794&group_id=36855&atid=418257
- Ability to switch between incremental reasoning on/off states. - In Progress
Discussion items
- Jen - Filtering system in OBO-Edit.
- My work on cross products and taxon links is badly held back just now by the lack of a good filtered save in OBO-Edit. I'm wondering if the need is great enough that I should start adding this feature even though we are still bug fixing. I have figured out what the interface could look like:
1) Add a new checkbox: 'choose tags to include'
2) When checked, this box calls up an auto-populated list of all the tag types in the file and the user can then choose which tags to include in each file.
- DOS comment:
- I like this suggestion. It should allow easy filtering of any new fields that are problematic to FlyBase. I would also provide a fix for this feature request: https://sourceforge.net/tracker/?func=detail&aid=2305635&group_id=36855&atid=418260
- DOS comment:
- Chris's comment:
- Hardcode an option for exporting a file with only {id,intersection_of} tags, as this would be satisfactory for the majority of use cases involving working with xps as separate files. I think this could be implemented fairly easily.
- Hardcode an option for exporting a file with only {id,intersection_of} tags, as this would be satisfactory for the majority of use cases involving working with xps as separate files. I think this could be implemented fairly easily.
- Chris's comment:
- Alternative approach is to always namespace links and xp defs, and
have the tag filtering done automatically from this. But I think this
involves more work on the editors part as they have to ensure all
links are correctly namespaced
- Prioritize tracker items
- Follow OBO-Edit on Twitter!
- new DBxref verification check requested by Susan Tweedie
- Can we instigate a check for DBxrefs of the form ID:0. A number of these have slipped though in GO recently. They cause problems for chado loading.
- Features that would be useful to have for Buffalo workshop:
- A way to convert intersection differentia to relations when saving implied links. See ticket:
save implied links misfeature - https://sourceforge.net/tracker/index.php?func=detail&aid=2305594&group_id=36855&atid=418257
- A system for saving appropriate subsets of terms from one ontology for reasoning in another:
- See ticket: https://sourceforge.net/tracker/?func=detail&aid=2116798&group_id=36855&atid=418260. Details of how this could work require some discussion.
- A system for saving appropriate subsets of terms from one ontology for reasoning in another:
- Request for info (DOS): At the Buffalo workshop, I'd like to present both GO and FBbt approaches to working with XPs.
- I would therefore like a practical guide to how GO are managing XPs and instantiating links implied using them.
Demos/ Tips/ Ticks
- Ontology Tree Editor - missing/new features now implemented in OBO-Edit2.1
- Distinction between local and global mode
- Now implemented in OBO-Edit2 - the much awaited - Lock View feature!
- Questions/Discussion points
- Independent sessions for multiple OTE instances
Tip of the week
- If we don't have anything here until the meeting time - the agenda chair can pick one of the attendees and put them on the spot about their favorite tip
- Suggestions:
- Editing the ontology through the OTE - workflow - things to take into consideration
- Query Building/ How To's
- How do I search for terms with multiple synonym types that have more than one relation with their ancestors?
Action Items
- UTF8 support
- OBO-Edit 2.1 release