Solving build error by updating schema - "relation xxx does not exist"

[mit2400]

Hi,
Thanks for maintaining this repo.

It helped many people working on MIMIC-related research, and still many people are using it.
However, it looks like that MIT-LCP has changed their view generation code to create concepts in the public schema, not the mimiciii schema.

Due to a schema change, people are facing build error as query cannot find generated concepts.

#65 relation "mimiciii.ccs_dx" does not exist
#18 Getting "relation "icustay_detail" does not exist" when running make build_curated_from_psql

Adding option --psql_schema_name public,mimic does not solve the problem because there are queries with hard-coded schema.

• As a solution, I simply add public schema to search path of codes and queries.

I've tested build instructions and it worked fine.
Hopefully, this will help people struggling with error and not to make this repo outdated.

[mmcdermott]

Hi @mit2400 -- many of these changes look great, but it seems there is some extra stuff in this PR as well (the focal loss implementation, some imputation functions, etc.). If you want to submit those too, can you separate them into another PR?

[mit2400]

Hi, @mmcdermott
I have removed changes that are not related to this PR.
Please check if it's okay.