Configuration Surface

Configuration belongs in the public surface only when a reader must understand it to use the package safely.

The canonical runtime API root is apis/bijux-proteomics-runtime/v1; the compatibility mirror root is apis/agentic-proteins/v1.

Package Surface

• provider selection and runtime controls
• workspace and persistence settings
• compatibility toggles required to preserve a legacy path during migration

First Proof Check

• src/agentic_proteins/interfaces/cli.py
• src/agentic_proteins/api/app.py
• packages/agentic-proteins/tests