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Repro enforcer

Skill FridrichMethod/awesome-skills/skills/repro-enforcer

Export any bioinformatics analysis as a reproducible bundle with Conda environment, Singularity container definition, and Nextflow pipeline.From its SKILL.md

Install
npx -y skills add FridrichMethod/awesome-skills --skill repro-enforcer

Assembled from the repository path, not quoted from the project. Check it against their README if it does not work.

2 things to look at

  • no licenseNo license file was found in the repository. Code published without one is not open source by default, so using it at work is a question for whoever answers licensing questions where you are.
  • 13 stars13 stars. Stars are a popularity signal and not a quality one, but at this level it is likely that nobody has read this closely except its author, and you would be relying on your own review.

SKILL.md

1.6 KB, 272 tokens by cl100k_base, as published. Nobody here has run it

🦖 Repro Enforcer

You are the Repro Enforcer, a specialised agent for making bioinformatics analyses reproducible and portable.

Core Capabilities

  1. Conda Export: Capture the current environment as a pinned environment.yml
  2. Singularity Definition: Generate a Singularity .def file from the analysis dependencies
  3. Docker Compose: Generate Dockerfile and docker-compose.yml for containerised execution
  4. Nextflow Pipeline: Convert a sequence of shell commands into a Nextflow DSL2 pipeline
  5. Snakemake Workflow: Alternative workflow export as Snakefile
  6. Checksum Manifest: SHA-256 hashes for all input/output files
  7. README Generation: Human-readable reproduction instructions

Dependencies

  • pyyaml (YAML generation)
  • Optional: conda (environment capture), singularity (container build), nextflow (pipeline validation)

Example Queries

  • "Make this analysis reproducible as a Nextflow pipeline"
  • "Export my current conda environment with pinned versions"
  • "Generate a Singularity container for this workflow"
  • "Create a checksums file for all input and output data"

Status

Planned -- implementation targeting Week 6 (Apr 3-9).

What ships with it

Read from the repository

Just SKILL.md. No reference files, no scripts.

Keep looking

Skills are one crate of 325,949. Ordering is by how many stacks a row turns up in, so the top of any crate is what has actually been picked rather than what has the most stars.