Move scigraph util to ontobio; better handling of ontobio objects; set owlsim limits

monarch-initiative / biolink-api

API for linked biological knowledge

https://api.monarchinitiative.org/api/

BSD 3-Clause "New" or "Revised" License

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Closed kshefchek closed 2 years ago

kshefchek commented 2 years ago

[x] Move scigraph_util and biomodel data style classes to ontobio
[x] #380
[ ] ~~Remove biolink yaml configuration and set ontobios config via a .env file~~
[ ] ~~Improve how we're creating ontobio objects to fix some of my hacky singleton work~~

Going to come back to 3 and 4 in another PR

kshefchek commented 2 years ago

note that the tests will fail until biolink/ontobio#588 is merged and put on pypi

kshefchek commented 2 years ago

@dustine32 would it be possible to push a new release of ontobio? I'll need it to get these tests to pass

dustine32 commented 2 years ago

@kshefchek Oh yes, for sure I will make an ontobio release today!

dustine32 commented 2 years ago

@kshefchek Just released ontobio-2.7.11!