mcpbeat Sign in

Source Manifest Skill for Codex

| Build or validate the source manifest for the source-tutorial pipeline from user-provided URLs/files.

2k tokens
context cost
the whole folder, loaded on every use
2
files
ships runnable scripts
0
copies elsewhere
how many repositories repackaged it
496
stars on the repo
on the repository, not the skill itself

Install

one command, takes just this skill from the repository
npx skills add https://github.com/WILLOSCAR/research-units-pipeline-skills --skill source-manifest

What comes with it

4 315 bytes besides the instruction
scripts/run.py

The instruction itself

11 sections, as written by the author

Source Manifest

Goal: collect the source candidates for source-tutorial into one explicit manifest before ingest starts.

Inputs

  • GOAL.md
  • DECISIONS.md

Outputs

  • sources/manifest.yml

Workflow

  • Read GOAL.md and any existing DECISIONS.md notes to understand what kinds of sources the tutorial is expected to use.
  • If sources/manifest.yml does not exist, scaffold it with a minimal example.
  • Validate that each source has:
  • source_id
  • kind
  • locator
  • label
  • for kind: video, prefer transcript_locator unless the platform exposes public subtitles
  • Reject placeholder/example-only manifests.
  • Return success only when at least one real source exists.

Accepted kind

  • webpage
  • pdf
  • markdown
  • repo
  • docs_site
  • video

For video:

  • preferred: add transcript_locator
  • Bilibili may succeed from public subtitles when available
  • YouTube should currently be paired with transcript_locator

Script

Quick Start

  • uv run python .codex/skills/source-manifest/scripts/run.py --workspace <workspace>

All Options

  • --workspace <dir> (required)
  • --unit-id <U###>
  • --inputs <semicolon-separated>
  • --outputs <semicolon-separated>
  • --checkpoint <C#>

Examples

  • Scaffold or validate the manifest:
  • uv run python .codex/skills/source-manifest/scripts/run.py --workspace <workspace>

Troubleshooting

Issue: the unit keeps blocking after scaffold

Cause:

  • The manifest still contains example placeholders.

Fix:

  • Replace the scaffold entry with real URLs or local file paths, then rerun the unit.

Other skills for the same job

different authors, same section of the catalogue
Protocolsio Integration
by christophacham
×4

Integration with protocols.io API for managing scientific protocols. This skill should be used when working with protocols.io to search, create, update, or publish protocols; manage protocol steps and materials; handle discussions and comments; organize workspaces; upload and manage files; or integrate protocols.io functionality into workflows. Applicable for protocol discovery, collaborative protocol development, experiment tracking, lab protocol management, and scientific documentation.

16k tokens
Tailored Resume Generator
by frostant
×4

Analyzes job descriptions and generates tailored resumes that highlight relevant experience, skills, and achievements to maximize interview chances

3k tokens
Excalidraw Diagram Generator
by github
vendor ×3

Generate Excalidraw diagrams from natural language descriptions. Use when asked to "create a diagram", "make a flowchart", "visualize a process", "draw a system architecture", "create a mind map", or "generate an Excalidraw file". Supports flowcharts, relationship diagrams, mind maps, and system architecture diagrams. Outputs .excalidraw JSON files that can be opened directly in Excalidraw.

36k tokens scripts
Expo Dev Client
by openai
vendor ×3

Build and distribute Expo development clients locally or via TestFlight

961 tokens
Executing Plans
by ZhanlinCui
×3

Use when you have a written implementation plan to execute in a separate session with review checkpoints

542 tokens
Anndata
by christophacham
×3

Data structure for annotated matrices in single-cell analysis. Use when working with .h5ad files or integrating with the scverse ecosystem. This is the data format skill—for analysis workflows use scanpy; for probabilistic models use scvi-tools; for population-scale queries use cellxgene-census.

16k tokens
Benchling Integration
by christophacham
×3

Benchling R&D platform integration. Access registry (DNA, proteins), inventory, ELN entries, workflows via API, build Benchling Apps, query Data Warehouse, for lab data management automation.

14k tokens
Biopython
by christophacham
×3

Comprehensive molecular biology toolkit. Use for sequence manipulation, file parsing (FASTA/GenBank/PDB), phylogenetics, and programmatic NCBI/PubMed access (Bio.Entrez). Best for batch processing, custom bioinformatics pipelines, BLAST automation. For quick lookups use gget; for multi-service integration use bioservices.

24k tokens

How to use it

Copy the folder

Take willoscar/source-manifest from the repository into ~/.claude/skills for personal use, or into .claude/skills inside a project.

Check the name does not clash

The agent identifies a skill by the name field in its header. Two skills with the same name cannot sit side by side — one of them will be ignored.