Create Docker/Singularity container - Githubissues

SchlossLab / mikropml-snakemake-workflow

Snakemake template for building reusable and scalable machine learning pipelines with mikropml

MIT License

11 stars 3 forks source link

Create Docker/Singularity container #28

Closed kelly-sovacool closed 1 year ago

kelly-sovacool commented 1 year ago

Change(s) made

Created container with --containerize.
- Added container to Dockerhub. https://hub.docker.com/repository/docker/kellysovacool/mikropml
- Created gh-actions workflow to keep the Dockerhub container up-to-date.
- Tested with Singularity on GreatLakes.
Tested as a module using snakedeploy.
- Removed scripts as input files.
- Used R Markdown doc directly as a script.
Updated the documentation
- Reorganized topics in README.md, config/README.md, and quick-start.md.
- Fixed compatibility with the snakemake workflow catalog

Checklist

(~Strikethrough~ any points that are not applicable.)

[x] Update the docs if there are any API changes (config/README.md, README.md).
~[ ] Re-run the pipeline on an HPC and update the example report.~
[x] The checks succeed on your most recent commit. This is always required before the PR can be merged.