[wip] Linkml

[djarecka]

creating a pr from the linkml branch I showed in June

this is how the linkml was created:

• using ttl file from [1.0.0-rc4](https://github.com/ReproNim/reproschema/blob/e0d83d05da24cb96493a529f597bbc7220b0cee3/releases/1.0.0-rc4/reproschema.ttl)
• converting using current version of schemauto: schemauto import-rdfs reproschema_orig.ttl -n reproschema -o reproschema_orig.yml
• using script to fix the slots/classes order
• manually fixing everything else :-)

[djarecka]

@satra - @sooyounga and I met today and we tried to recall what else has to be done for this PR, and want to double check with you. In order to finish this, we should:

• check if the pydantic version of the schema is a proper schema, and if you are able to initialize all the objects (I've started checkin g this and e.g., I had to rename Field to Item)
• check if we can reuse linkml types (I believe I change multiple types to linkml ones in my last commit, but perhaps there is something more that we could change)
• create functions that reads items from the reproschema-library (e.g. this one) and creates instances of the classes defined in the pydantic file (likely some additional fixes to the model might be needed) @satra - should this be part of this repository or reproschema-py?

Anything else should be done or tested in order to complete this PR?

[satra]

the pydantic code and any additional functions should be part of the reproschema-py repo.

for this repo, a generated jsonld context and shacl validation should be the same functionally to what exists.

for any change, an action may need to pull in reproschema-py, augment it with changed pydantic code, and then test with that change, and also submit that change as a PR to the reproschema-py repo.