Open cmungall opened 8 years ago
Please give plenty of notice before you actually do this, as I need to assess the extent of the effect this change will have on a whole bunch of code. go-upper is the glue that binds together eco-usage-constraints, db-xrefs and gorel.
We may be able to bring in much of the upper ontology we need in one go, but clearly we should only gradually switch over from go-upper - testing each upper-level grouping as we go. I strongly suspect that we'll still need a small file of slightly hacky links once this is done - evidence might be once case; protein families (which Tony needs to keep distinct from proteins) might be another.
go-upper.obo which contains an ad-hoc grouping of ontology classes from multiple ontologies used for database checks, primarily p2go
This is dependent upon: https://github.com/geneontology/go-ontology/issues/12221
After this ticket is complete, there are remaining issues: