Skill

repro-enforcer

Generates reproducible bundles for bioinformatics analyses: Conda environments, Singularity/Docker containers, Nextflow/Snakemake pipelines, checksums, and README instructions.

Python

Docker

data-engineering

devops

From clawbio

Install

Run in your terminal

npx claudepluginhub clawbio/clawbio --plugin clawbio

Tool Access

This skill uses the workspace's default tool permissions.

Skill Content

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Stats

Stars611

Forks115

Last CommitMar 11, 2026

Actions

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🦖 Repro Enforcer

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

Core Capabilities

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