Configuration Surface

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

Package Surface

• contract and validation options that shape readiness rules
• runtime-adapter settings only where they express contract-level intent
• schema-version expectations carried through serialization surfaces

First Proof Check

• src/bijux_proteomics/domain/program_spec.py, domain/repositories.py, and domain/targets.py
• src/bijux_proteomics/interfaces/cli/app.py and interfaces/cli/__main__.py
• packages/bijux-proteomics-core/tests