conservation

Scope: Global conservation checks.
Audience: Contributors and reviewers.
Guarantees: Conservation violations stop execution.
Non-Goals: Biological realism beyond constraints.
Why: This doc exists to record its single responsibility for review.

Overview

This doc defines pathway-level conservation checks.
Architecture components are defined in Architecture.
Read Docs Style for structure.

Contracts

Total energy is bounded by a minimum.
Activation mass is capped per pathway.
Resource dependencies are validated against a pool.

Invariants

Violations are detected and logged.
Execution stops on violation.
Checks apply to every tick.

Failure Modes

Energy violations raise errors.
Activation mass violations raise errors.
Resource violations raise errors.

Extension Points

Conservation changes update Metrics.
Contract changes update Pathway Limits.
Documentation updates follow Triage.

Exit Criteria

This doc becomes obsolete when checks are generated.
The replacement is Architecture.
Obsolete docs are removed.

Code refs: src/agentic_proteins/biology/pathway.py.