template-methods-orchestration

# Methods orchestration ## Natural invoke - "Improve all methods orchestration repo-wide" - "Make sure methods match the pipeline and artifacts" - "Audit methodology sections against stage contracts" - "Add method contract validation for this project" ## Workflow 1. **Build the plan** - run `infrastructure.methods` for the target project(s). 2. **Check surfaces** - manuscript methods files, `pipeline.yaml` stage contracts, artifact manifest, evidence registry, and validation commands. 3. **Repair source layers** - update `src/`, thin scripts, manuscript source, or stage contracts. Do not edit generated `output/` as a fix. 4. **Regenerate and validate** - run core pipeline or focused stage commands, then rerun methods plan with `--check`. 5. **Document routing** - update AGENTS/README when method ownership or commands changed. ## Verification commands ```bash uv run python -m infrastructure.methods plan --project <project> --format markdown uv run python -m infrastructure.methods plan --project <project> --format json --check uv run python scripts/runner/execute_pipeline.py --project <project> --core-only uv run python -m infrastructure.validation.cli prerender projects/<project>/manuscript --repo-root . uv run pytest tests/infra_tests/methods -q ``` ## Handoffs - Broken stage behavior -> [pipeline-debugging](../pipeline-debugging/SKILL.md) - Evidence/claim mismatch -> [manuscript-claim-verification](../manuscript-claim-verification/SKILL.md) - Rebuild drif...