Extend adapters to support versions

[matentzn]

I am working with a great bioinformatician on a project which involves doing oaking with PHENIO and loading data from the Monarch KG (separately). PHENIO is large, and it frequently changes because of its size. My colleague would like to be able to use OAK adapter framework but selecting the "version of PHENIO currently integrated with the Monarch KG".

I think this makes a lot of sense, but I don't know if the current registry stores older versions and would permit to do something like:

runoak -i sqlite:obo:phenio:v2024-11-05 command

would at all be feasible.

[caufieldjh]

The semsql collection doesn't store older versions, unfortunately.
I wonder if we could get OAK to retrieve from the corresponding GH release instead, based off a shorthand like your example.

[cmungall]

ideally all ontologies would start building sqlite/duckdbs for every release alongside obo, owl, json, everything would be versioned together, and the need for the semsql repo would go away

[gouttegd]

@cmungall Should the ODK push for this?

(By “pushing”, I mean, e.g. making that a default behaviour.)