Test, Document, Containerise, and Deploy R Packages
Bioconductor / R versions
Check containers exist
Check registry
Conda export
Construct authors
Construct a conda yaml
Construct containers list
Construct runners
data.table to desc
Fill DESCRIPTION
Get authors
Get DESCRIPTION files for R repos
Get DESCRIPTION
Get GitHub URL: from database
Get hex
GitHub Actions python versions
Infer biocViews
Infer dependencies
Infer Docker registry organisation name
Is GitHub Action
Message parallel
Print messages
Stop messages
Use badges
Use Codespace
Use Dockerfile
Use Issue Template
Use README
Use vignette: Docker
Use vignette: Get started
Use GitHub Actions workflow
Reproducibility is essential to the progress of research, yet achieving it remains elusive even in computational fields. Continuous Integration (CI) platforms offer a powerful way to launch automated workflows to check and document code, but often require considerable time, effort, and technical expertise to setup. We therefore developed the rworkflows suite to make robust CI workflows easy and freely accessible to all R package developers. rworkflows consists of 1) a CRAN/Bioconductor-compatible R package template, 2) an R package to quickly implement a standardised workflow, and 3) a centrally maintained GitHub Action.
Useful links