Ontology meeting 2018-09-10: Difference between revisions
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** Dealing with and migrating binding terms | ** Dealing with and migrating binding terms | ||
** Dealing with cellular processes (https://github.com/geneontology/go-ontology/issues/12849) | ** Dealing with cellular processes (https://github.com/geneontology/go-ontology/issues/12849) | ||
** Taxon constaints- How do we handle them going forward? | |||
* Attendees | * Attendees | ||
** David H (Can make it) | ** David H (Can make it) |
Revision as of 08:57, 10 September 2018
Conference Line
Agenda
Editors Discussion
Order of Operations for External identifiers
For CHEBI ids, new ECs, Rhea? Should GO editors or requestors follow up with EC and/or RHEA requests?
Can we put terms into GO while waiting for ids outside of ontology?
Project Update
- RO meeting to take place in Colorado in October
Testing the new version of Protege
There is a beta version of the new Protege available. We should test it before the official release. What is our plan?
Ticket on another tracker
OBI ticket: https://github.com/obi-ontology/obi/issues/963
Ontology Developers' workshop
The meeting will focus on (Depending on who can attend):
- creating good logical definitions in both a general context and in the context of the GO-Reactome-Rhea alignment
- Filling in missing GO-Rhea xrefs
- moving from reactions to biochemical pathways
- implementation of a method to keep in synch with all three resources
- GO-CAM templates for pathways??
- potential implementation of Design Patterns and the revival of some type of TermGenie ability
- GH ticket work and mini-project planning
- Dealing with and migrating binding terms
- Dealing with cellular processes (https://github.com/geneontology/go-ontology/issues/12849)
- Taxon constaints- How do we handle them going forward?
- Attendees
- David H (Can make it)
- Kimberly (Can make it)
- Karen
- Harold (Can make it)
- Pascale (Can make it)
- Barbara (Maybe make it)
- Alan B (Rhea, can make any day)
- Anne (Rhea, prefers Monday or Tuesday)
- Chris
- Peter D?
- Ben?
- Jim?
Tickets
Failures due to use in other ontologies
Friday after much discussion, Rachael and I tried to finally obsolete lamina reticularis. When we created the pull request, the Travis check failed due to the use of the term in Uberon. Do we really want this behavior? It will make us dependent on other ontologies to proceed with our work.
https://travis-ci.org/geneontology/go-ontology/builds/425727676?utm_source=github_status&utm_medium=notification https://github.com/geneontology/go-ontology/pull/16345
GH project link
https://github.com/geneontology/go-ontology/projects/1
Minutes
- On call: