OEWG 20120306

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OBO-Edit Working Group Meeting: Tuesday, March 6, 2012, 8:30am PST

Conference call numbers:
US: 1 866 953 9688
UK: 0808 238 6001
PIN: 801561

Agenda/Chair: Nomi Harris
Minutes: Nomi
Attendees:

Bug and Feature Trackers

Discussion

  • OBO-Edit 2.1.1-b7 released on 28 February
  • Warn about possible stale config files when launching new version
    • Whenever you upgrade to a new version of OBO-Edit, there is the risk that out-of-date binary files in your ~/oboedit_config (mostly in oboedit_config/perspectives) will cause bad behavior of various unexpected sorts (perhaps even the relation-choosing issue above). Now a warning message pops up the first time you run a new OBO-Edit release (and it offers to rename oboedit_config/perspectives for you.)
      • Reworded warning. Added a popup message that appears if you say Yes to the move that tells you where the directory was moved to.
      • The consequences of not renaming/resetting your oboedit_config/perspectives can be serious enough that I'm considering just having it just move the perspectives directory automatically when you upgrade OE, tell you where it's moved to, and let power users restore it themselves if they want to. Opinions?
        • People agreed that it might be less confusing/intimidating to have OE rename your perspectives directory without asking first. It will tell you where it moved it to, and power users can restore it at their own risk.
        • Update: I decided NOT to have it move your perspectives without asking, mostly because it would be so extremely annoying to ME as I try to debug (I often run different versions to compare them).

Fixed or newly added since last meeting

the lists.

Currently working on

  • Deleted differentia (in XP editor) sometimes reappear
    • Non-deterministic--you can load the same ontology file and delete the same differentium, and sometimes it will reappear whereas other times it will stay gone.
      • When the differentium comes back, console shows error message, "Couldn't delete non-existant [sic] relationship regulation of carbohydrate utilization ~~regulates~~> carbohydrate utilization)"
    • Seems to occur when there's a regular relation that's redundant with a cross-product, e.g.,
id: GO:0043610
name: regulation of carbohydrate utilization
is_a: GO:0050789 ! regulation of biological process
intersection_of: GO:0065007 ! biological regulation
intersection_of: regulates GO:0009758 ! carbohydrate utilization
relationship: regulates GO:0009758 ! carbohydrate utilization

Links

Back to OEWG meeting agenda and minutes list