OEWG 20120807

OBO-Edit Working Group Meeting: Tuesday, August 7, 2012, 8:30am PDT

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

Agenda/Chair: Heiko Dietze
Attendees:

Goal of this meeting: Extend the scope of this call to become more of a general ontology support meeting (e.g., help with using OORT, TermGenie, phenotype ontologies, etc.)

Some open questions:

• Do we need a new name?
• Where to announce the meetings (currently its the OBO-Edit working group mailing list)?
• Who is the targeted audience?

Bug and Feature Trackers

• OWLTools and OORT bug tracker
• OBO format reference implementation bug tracker
• TermGenie bug tracker
• OBO-Edit Bug tracker
• OBO-Edit Feature tracker

OBO-Edit

Fixed or newly added since last meeting

• Beta-Release: 2.3-beta 1.
  

The main improvement is the option to add more dictionaries for the spell-checking. This will allow enable users to share dictionaries (e.g., in an SVN) without the need to copy and overwrite them manually in the OBO-Edit configuration folder.

Currently working on

• Testing of the new dictionary feature (Paola)
• Integrate the latest bug-fixes of the obo2owl and owl2obo conversion into OBO-Edit (ongoing)

Recent Bug Reports

• Reporting of errors in imported ontologies is insufficient

• Problems on KUbuntu and Java 7

OBO Format

• OBO writer: Fixed a bug for the property value writing
• SPEC: Updated spec, TODO move(copy?) ordering recommendation from guid to spec
• OWL2OBO: new CLI option to write untranslated axioms into a file

OWLTools

• OORT: per Davids request there is a new ontology file, which contains the same as the main ontology (MIREOT + asserted inferences), but removed the equivalence axioms. Current (intermediate?) name: 'relaxed'
• ELK 0.3.0 support: Due to a bug in the current 0.3.0 release this is delayed. bug report Yevgeny already has fixed the bug and its available in the nightly builds. Currently testing.