notebook-to-pipeline-surgeon

name

notebook-to-pipeline-surgeon

description

Convert exploratory notebooks into modular, parameterized scripts or orchestrated pipeline tasks. Use when an agent needs a judgment-heavy data science workflow for refactor notebooks into maintainable pipelines, including evidence review, local artifact inspection, risk classification, stakeholder-ready decisions, reproducibility, governance, or agent-to-agent handoff. Trigger for Codex, Claude, Gemini, Copilot, Cursor, Windsurf, Gravity, LangGraph, CrewAI, AutoGen, or local agents when this exact workflow is needed.

Notebook To Pipeline Surgeon

Mission

Convert exploratory notebooks into modular, parameterized scripts or orchestrated pipeline tasks.

Current pain point: Production workflows inherit notebook state, copy-pasted cells, and manual execution steps.

Why this skill exists: A surgical refactor preserves analytical intent while separating parameters, pure transforms, IO, tests, and orchestration.

Operating Rules

• Start by restating the decision this skill is supporting.
• Inspect local artifacts first before asking for context.
• Treat scripts as evidence collectors, not as substitutes for judgment.
• Preserve raw data, notebooks, configs, and model artifacts unless the user explicitly asks for mutation.
• Mark missing context as unknown, not provided, or owner decision; do not invent it.
• Classify each blocker as stop, fix-first, monitor, accepted risk, or owner decision.
• Use the output contract exactly unless the user asks for a different format.
• Keep final recommendations auditable: every important claim needs evidence, assumption, or caveat.

What This Skill Must Do

• Transform a vague request into an explicit Notebook To Pipeline Surgeon decision with named owner, evidence, assumptions, and action threshold.
• Inspect local artifacts first: data extracts, schemas, notebooks, SQL, pipeline configs, model reports, tickets, and prior decisions.
• Separate mechanical checks from expert judgment so another reviewer can reproduce what was checked and what was inferred.
• Classify findings as stop, fix-first, monitor, accepted risk, or owner decision instead of producing generic advice.
• Preserve raw evidence and never silently mutate data, notebooks, model artifacts, or production configs.
• Return a decision artifact that can be handed to a data scientist, ML engineer, governance reviewer, or stakeholder without hidden context.

Required Inputs

• notebook
• target runtime
• data locations
• expected outputs
• orchestration preference if any

If an input is missing, inspect available files first. Ask only for information that cannot be recovered from the workspace and would change the recommendation.

Workflow

1. Identify notebook sections: config, IO, transforms, modeling, evaluation, visualization, and side effects.
2. Extract reusable functions and isolate parameters.
3. Define CLI or config file and deterministic outputs.
4. Choose simple scripts first; use Dagster, Kedro, Prefect, or Airflow only when orchestration value is clear.
5. Return a refactor plan with tests and migration steps.

Red Flags

• global mutable state
• manual cell ordering
• plot-only outputs used downstream
• external calls in transform functions
• orchestrator added without need

When a red flag appears, slow down and surface it in Risks. A red flag does not always mean stop, but it must change the recommendation or the confidence level.

Resources

• Read references/playbook.md for the skill-specific checklist, scoring rubric, and failure modes.
• Read references/acceptance-tests.md before forward-testing clean, messy, and adversarial requests.
• Read references/agent-portability.md when adapting this skill to Claude, Gemini, Copilot, Cursor, Windsurf, Gravity, LangGraph, CrewAI, AutoGen, or local agents.
• Read references/quality-rubric.md when reviewing whether the output meets senior data-science standards.
• Use scripts/quick_validate_skill.py . --strict before publishing or installing the skill.

Use only the specific reference file needed for the task; keep context small.

Output Contract

Return these sections unless the user requests another format:

• Problem: the decision, artifact, model, data source, or workflow being handled.
• Inputs: files, data, stakeholder context, assumptions, and missing context used.
• Checks performed: concrete inspections, scripts, and reasoning checks.
• Findings: prioritized observations with evidence.
• Decision: go, fix-first, stop, proceed-with-risk, or needs-owner-review.
• Risks: unresolved blockers, caveats, and owner decisions.
• Next actions: smallest useful follow-up steps.
• Artifacts: generated files, specs, reports, scripts, or links.

Final Checks

• Did the response answer the actual decision, not just analyze data?
• Did it preserve evidence and avoid silent mutation?
• Did it name unknowns and owner decisions?
• Did it include at least one concrete next action?
• Did it avoid overclaiming causality, readiness, compliance, or production safety?