monarch-initiative / monarch-ingest

Data ingest application for Monarch Initiative knowledge graph using Koza
https://monarchinitiative.org
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Convert from biolink-model-pydantic to linkml pydanticgen classes #197

Closed kevinschaper closed 2 years ago

kevinschaper commented 2 years ago

We're currently using our very own special boutique biolink specific code generation software (biolink-model-pydantic), and we've been building up the linkml pydanticgen code to replace it. Pydanticgen may not have the same level of validation, which we'll make up for with adding linkml-validator to Koza.

putmantime commented 2 years ago

Look at how python gen gets the class URI.

putmantime commented 2 years ago

@kevinschaper please review biolink and linkml PR status for this.

kevinschaper commented 2 years ago

I'm working on cleaning up a couple of lingering biolink-model-pydantic imports that came in parallel to this

putmantime commented 2 years ago

Check Biolink to see if onset change has been made