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@sierra-moxon made:
https://github.com/biodatamodels/obograph
Should we merge repos? I think the options are
1. monorepo, covering spec, java data model, java conversion from owl code, pytho…
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- [x] Use the ODK to create the initial AK project ontology
- [x] Will we be publishing this on OBO Foundry? Yes
- [x] Fill out with additional ontologies
- [ ] Customize term imports so only relev…
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I believe we arrived at a place where this would represent an array with any shape:
```yaml
classes:
MyClass:
attributes:
an_array:
range: int
array:
```
but c…
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Our targets include
- python
- json schema
- OWL
JSON-Schema supports a subset of javascript/ECMA regexes, described here:
- https://json-schema.org/understanding-json-schema/reference/regula…
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"LinkML is a flexible modeling language that allows you to author schemas in YAML that describe the structure of your data". Perhaps we can represent the FAIR Genomes schema in LinkML to increase oper…
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CLI doesn't implement all features in code interface
> Usage: linkml-schema-fixer [OPTIONS] COMMAND [ARGS]...
>
> Apply schema-fixer commands.
>
> Options:
> -v, --verbose
> -q, --qui…
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- [ ] metadata as object store on GitHub, and a running database for loaded ...
- [ ] proof read everything from search app
- [ ] move columns metadata to attributes, think about length of int and c…
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When looking at https://microbiomedata.github.io/submission-schema/AirInterface/#induced (for example)
```yaml
air_PM_concen:
...
domain_of:
- Biosample
- AirInterface
-…
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See:
- https://github.com/jannahastings/py-horned-owl/pull/15
Which will be in 0.3.0: https://github.com/jannahastings/py-horned-owl/releases/tag/v0.3.0rc1
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We should come up with a new strategy for maintaining and using a Monarch LinkML Schema.
Options include (in no particular order of preference/usefulness):
- Creating a `monarch-data-model` repo …