Jim Balhoff

@cmungall @matentzn is there a place in SSSOM to hold the probabilities? It doesn't seem like it fits, given that the 4 probabilities represent 4 different predicates. How should that...

I think better logging is needed. But in the meantime, you may be hitting the bad default for `exhaustive-search-limit`, which is too high (`20`). Try setting to `14`.

Re: the type of the ID field, if you want CURIEs then I think it's more like what they call `CURIEorIRI` here: https://www.w3.org/TR/rdfa-core/#dfn-curieoriri

I think this is the ticket you were looking for: https://github.com/OBOFoundry/OBOFoundry.github.io/issues/276

I agree with Chris. The `obo-prefixes` option can remain tool-specific. I need to document it better on the dosdp-tools site. If it's seen as promoting laxity I could even remove...

Not specific to this PR, but it made me notice that we have tons of references to a nonexistent FOAF property ("depicted_by"). It should be `foaf:depiction`. I think this came...

@sierra-moxon I'm not sure this is exactly the issue or not, but GPADs out of Noctua use only these relations for extensions: https://github.com/geneontology/minerva/blob/df132bc5f1846c99735936f38058ee49fc339c84/minerva-converter/src/main/resources/org/geneontology/minerva/legacy/sparql/gpad-extensions.rq#L17 That list has been evolving based on...

@JervenBolleman you can find this in the OLS view: https://www.ebi.ac.uk/ols4/ontologies/go/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FGO_0006040 It would be nice for us to have a link there from Amigo. What do you think of that @kltm?

Oh I see, you would like a machine-readable download per term? I was thinking you just wanted to see the OWL modeling, which on that page is in Manchester syntax...

@JervenBolleman can you say more about what you would want to see for a particular term that would be more complete? OLS has its equivalent class expression as well as...