Jupyter Notebook

---
name: "jupyter-notebook"
description: "Use when the user asks to create, scaffold, or edit Jupyter notebooks (`.ipynb`) for experiments, explorations, or tutorials; prefer the bundled templates and run the helper script `new_notebook.py` to generate a clean starting notebook."
---


# Jupyter Notebook Skill

Create clean, reproducible Jupyter notebooks. Use the bundled templates and helper script for consistent structure and fewer JSON mistakes.

## Kind selection
- Exploratory, analytical, or hypothesis-driven → `experiment`
- Instructional, step-by-step, or audience-specific → `tutorial`
- Editing existing notebook → refactor (preserve intent, improve structure)

## Skill path (set once)

```bash
export CODEX_HOME="${CODEX_HOME:-$HOME/.codex}"
export JUPYTER_NOTEBOOK_CLI="$CODEX_HOME/skills/jupyter-notebook/scripts/new_notebook.py"
```

User-scoped skills install under `$CODEX_HOME/skills` (default: `~/.codex/skills`).

## Workflow
1. Lock the intent.
Identify the notebook kind: `experiment` or `tutorial`.
Capture the objective, audience, and what "done" looks like.

2. Scaffold from the template.
Use the helper script to avoid hand-authoring raw notebook JSON.

```bash
uv run --python 3.12 python "$JUPYTER_NOTEBOOK_CLI" \
  --kind experiment \
  --title "Compare prompt variants" \
  --out output/jupyter-notebook/compare-prompt-variants.ipynb
```

```bash
uv run --python 3.12 python "$JUPYTER_NOTEBOOK_CLI" \
  --kind tutorial \
  --title "Intro to embeddings" \
  --out output/jupyter-notebook/intro-to-embeddings.ipynb
```

3. Fill the notebook with small, runnable steps.
Keep each code cell focused on one step.
Add short markdown cells that explain the purpose and expected result.
Avoid large, noisy outputs when a short summary works.

4. Apply the right pattern.
For experiments, follow `references/experiment-patterns.md`.
For tutorials, follow `references/tutorial-patterns.md`.

5. Edit safely when working with existing notebooks.
Preserve the notebook structure; avoid reordering cells unless it improves the top-to-bottom story.
Prefer targeted edits over full rewrites.
If you must edit raw JSON, review `references/notebook-structure.md` first.

6. Validate the result.
Run the notebook top-to-bottom when the environment allows.
If execution is not possible, say so explicitly and call out how to validate locally.
Use the final pass checklist in `references/quality-checklist.md`.

## Templates and helper script
- Templates live in `assets/experiment-template.ipynb` and `assets/tutorial-template.ipynb`.
- The helper script loads a template, updates the title cell, and writes a notebook.

Script path:
- `$JUPYTER_NOTEBOOK_CLI` (installed default: `$CODEX_HOME/skills/jupyter-notebook/scripts/new_notebook.py`)

## Temp and output conventions
- Use `tmp/jupyter-notebook/` for intermediate files; delete when done.
- Write final artifacts under `output/jupyter-notebook/` when working in this repo.
- Use stable, descriptive filenames (for example, `ablation-temperature.ipynb`).

## Dependencies

The scaffold script uses only stdlib. For local execution: `uv pip install jupyterlab ipykernel`.

## Reference map
- `references/experiment-patterns.md`: experiment structure and heuristics.
- `references/tutorial-patterns.md`: tutorial structure and teaching flow.
- `references/notebook-structure.md`: notebook JSON shape and safe editing rules.
- `references/quality-checklist.md`: final validation checklist.