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OMOP Alchemy

Purpose: to provide an oncology-extension focused implementation of SQLAlchemy ORM definitions with opinionated enforcement of data conventions.

For reference, see background 2023 OHDSI APAC symposium paper.

Notes

If you don't want to install and configure a sagecipher keyring for credential management, you can instead create file pwd_override.txt under oa_config.app_root, containing just plaintext password, which will override the keyring functionality.

Create oa_system_config.yaml in this same directory to specify your local or system database parameters for connection. oa_system_config_demo.yaml has been provided as a template example.