co-scientist-pipelinelisted

# co-scientist-pipeline Goal: - Run the full Co-Scientist pipeline for one research run. Inputs: - one run directory root - run-local `input.md` - optional compatibility `config.yaml` - optional `resume` flag - existing run artifacts when resuming Outputs: - updated run artifacts - `RUN_POLICY.yaml` - `state/POLICY_DECISION.json` - `state/RESOLVED_RUN_CONFIG.json` - `state/STRATEGY_PLAN.json` - `state/STRATEGY_DECISIONS.jsonl` - `state/EVOLUTION_ROUNDS.jsonl` - `state/PIPELINE_STATE.json` - `state/CURRENT_STAGE.json` - `state/HOST_AGENT_HANDOFF.json` when a host-agent handoff is prepared - final research overview when convergence is reached Sub-skills: - `research-config` - `hypothesis-generation-pipeline` - `hypothesis-evolution-loop` - `research-overview-pipeline` Required shared references: - `../shared-references/artifact-contract.md` - `../shared-references/completion-contract.md` - `../shared-references/policy-contract.md` - `../shared-references/resolved-config-contract.md` - `../shared-references/strategy-contract.md` - `../shared-references/state-contract.md` - `../shared-references/integration-contract.md` - `../shared-references/execution-modes.md` - `../shared-references/schema-index.md` Context Loading: - Open `../shared-references/integration-contract.md`, `../shared-references/strategy-contract.md`, `../shared-references/completion-contract.md`, and `../shared-references/schema-index.md` before dispatching any sub-skill. - Before writing top-level c