Nico Matentzoglu

If we had a method: bioregistry.isCompliant(ontology, context=null) I would prioritise this, else we have a QC check that manually enumerates the permitted prefixes.

I wonder if it would be better to have this logic in OAK rather than bioregistry, because of separation of concerns? In either case, its not as easy as you...

This should already work, here is the query: https://github.com/monarch-initiative/mondo/blob/master/src/sparql/update/delete-axiom-annotations-by-prefix.ru Investigate why id does not.

I know why, because of the axiom annotations, they need to be deleted as well.. this is more complex, and requires adding 4-5 Optional clauses to capture all possible axiom...

@ar-ibrahim - best you tell me then I tell you - my brain is too far out of this subject already :/ Sorry. You can also check with Ray when...

I think most people won't know what "cache" means, and that you may have to invalidate it. I asked @daniwelter to make an issue (thanks for that Dani) to see...

Yes we are in agreement. The specific case is if the dependency is a file to be downloaded, for which we have developed quite a complex workaround. This may not...

I very much agree with @bpeters42 that "do we chose modelling constructs to suit our choice of reasoners" is an important question we need to talk about. We have been...

What kind of assumptions are these? I am happy to fix it over the summer.

I made a first pass [here](https://github.com/INCATools/ontology-development-kit/pull/269) updating the documentation, but I cannot find any functional differences. The git client commands are still the same.. Not sure what else to do...