Skill Claude CodeCodex
Create a new Stencila workflow. Use when asked to create, write, scaffold, or set up a workflow directory or WORKFLOW.md file. Covers workflow discovery, duplicate-name checks, ephemeral workflows, WORKFLOW.md frontmatter, DOT pipeline authoring, goals, agents, branching, composition, and validation.
Skill Claude CodeCodex
Critically review a Stencila workflow and suggest improvements. Use when asked to review, audit, critique, evaluate, or improve a workflow directory or WORKFLOW.md file. Covers frontmatter validation, DOT pipeline quality, workflow structure, agent selection quality, discovery metadata, ephemeral workflow conventions…
Instructions file CodexOpenCode
Instructions for stencila/stencila, covering project structure, rust development, package-specific development, schema changes and generated files.
Plugin Claude Code
Author, execute, convert and publish Stencila documents. Teaches Claude Stencila Markdown and the stencila CLI, and adds /stencila: commands, document-authoring agents, and workspace-aware hooks.
Agent
Drafts and edits executable Stencila documents (.smd, .myst, .qmd). Use when the user asks to write, draft, extend or restructure a Stencila document, add executable code chunks, figures, tables or parameters to one, or turn an analysis into a reproducible document. Verifies its work by executing before reporting done.
Agent
Audits Stencila documents for reproducibility. Use when the user asks whether a document or project still reproduces, wants a reproducibility check or audit, or suspects stale outputs. Re-executes everything without saving and reports problems; does not fix them.
Hook
Runs when a session starts on startup, resume, clear and compact, running sh. From stencila/stencila.
Hook
Runs after a tool call finishes for Write and Edit tool calls, running sh. From stencila/stencila.
Skill Claude CodeCodex
How to write Stencila Markdown (.smd) and work with executable documents in related flavours (.myst, .qmd). Use when creating or editing .smd files, adding executable code chunks, inline expressions, parameters, figures, tables, math, or document metadata, or when unsure how Stencila Markdown differs from plain…
Skill Claude CodeCodex
Converting documents between formats with stencila convert - lossless vs lossy targets, quantifying conversion losses, decoding options, and ingesting documents by DOI, arXiv, or PubMed Central identifier. Use when converting to or from DOCX, PDF, LaTeX, JATS, IPYNB, MyST, Quarto or other formats, or importing…
Skill Claude CodeCodex
Convert a document between formats, reporting any conversion losses.
Skill Claude CodeCodex
Check the health of the Stencila CLI installation - version, available upgrades, kernels, linters, external tools, and workspace configuration. The first thing to run when anything Stencila-related is not working.
Skill Claude CodeCodex
Execute the code in a Stencila document and save the outputs into it.
Skill Claude CodeCodex
How Stencila executes documents - kernels, staleness-driven re-execution, execution options, and debugging chunks that error or do not re-run. Use when running stencila execute or render, when a code chunk is not re-running, when choosing a language/kernel, or when reading execution errors.
Skill Claude CodeCodex
Lint Stencila documents and summarise the diagnostics.
Skill Claude CodeCodex
Create a new, tracked Stencila document with scaffolded frontmatter.
Skill Claude CodeCodex
Open a live preview of a Stencila document or site in the browser.
Skill Claude CodeCodex
Publishing Stencila documents - rendering to HTML/PDF/DOCX with themes, building and pushing workspace sites, publishing to Ghost or Zenodo, and signing outputs with content credentials. Use when the user wants to publish, deploy a site, apply a theme, produce final outputs, or push to Ghost, Zenodo or Stencila Cloud.
Skill Claude CodeCodex
Render a Stencila document - execute its code and encode to output formats.
Skill Claude CodeCodex
Screenshot a Stencila document and read it back for visual verification.
Skill Claude CodeCodex
Stencila workspace configuration and document tracking - stencila.toml sections, stencila init, track/status/untrack/clean, and what lives in the .stencila/ directory. Use when configuring a Stencila project, setting up remotes or outputs, interpreting stencila status, or deciding what to commit or clean.
Agent
Creates or updates an agent.
Agent
Reviews an agent for quality, correctness, and completeness.
Agent
Agents for creating and reviewing other agents.