feat!: update /search/studies endpoint

[korikuzma]

close #273 . I will open once #266 is merged

@jsstevenson again, fresh eyes would be helpful for this 😄

Notes:

• This PR updates the previously named /search/statements endpoint. Will address Move variant.definingContext.expressions to variant.members #309 at a later time. This PR is to kind of mirror what was done previously, so I'd like to address "major" response changes in separate issues if possible.
• There are some places where I should use enums. I will do this in Create enums for database node labels and relationships #270 or a separate issue. I opened an issue in VRS-Python to create str enums
• For input variation, I decided to query based on a definingContext or a members match
• The way that identifiers are computed in VRS-Python made it so that our FastAPI endpoints only return the minimal information needed (ga4gh keys) to create a digest. See more in add back missing models to openapi.json #305 . I haven't had time to dive much deeper into this issue

Changes:

• Renamed /search/statements to /search/studies and updated to use the latest schema
• Temporarily removes other endpoints /search and /search/{id} which will be added in Update /search endpoint for gk-pilot schemas #274 and Update search/{id} endpoint for gk-pilot schemas #272

[korikuzma]

I think I will wait to open until @bwalsh and @ahwagner give feedback on dev instance.

After initial talk with @ahwagner , I should move variant.definingContext.expressions into variant.members. For CIViC variants, the genomic hgvs expression should already be there.

[korikuzma]

The last commit added support for providing genomic variation query. At the moment, only CIViC studies will be returned. Once #283 is complete, MOA assertions should also be returned

[korikuzma]

Something is happening with the civic.eid:2880 evidence item and associated queries such as NC_000013.10:g.32890600G>T and BRCA2 M1I. We are getting a No studies found with the provided query parameters. in the warnings, but the study_ids field has civic.eid:2880 in it. I will look into this later.

Using 20240103

[korikuzma]

I think I will wait to open until @bwalsh and @ahwagner give feedback on dev instance.

After initial talk with @ahwagner , I should move variant.definingContext.expressions into variant.members. For CIViC variants, the genomic hgvs expression should already be there.

Made new issue for this #309

[korikuzma]

Something is happening with the civic.eid:2880 evidence item and associated queries such as NC_000013.10:g.32890600G>T and BRCA2 M1I. We are getting a No studies found with the provided query parameters. in the warnings, but the study_ids field has civic.eid:2880 in it. I will look into this later.

Using 20240103

#310 fixes this

[jsstevenson]

👍 looks good

[korikuzma]

@jsstevenson applied your suggestions. I also don't love the ordering of methods. I can re-order after you review latest changes

[jsstevenson]

👍

[jsstevenson]

yeah seems reasonable