gh-actions-workshop
Science Score: 49.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 4 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (12.1%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: KristinaRiemer
- License: mit
- Language: R
- Default Branch: main
- Size: 187 KB
Statistics
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
GitHub Actions For Scientific Data Workflows
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This repository contains some example uses of GitHub Actions for automating scientific data workflows. It is inspired heavily by a workshop given at US-RSE 2024 by @valentina-s, @gbrencher, and @scottyhq. Their book and repository contain additional examples that are more python focused and maybe more advanced, while the examples in this repository are more R focused and will be used in a shorter format workshop at the University of Arizona.
Using this repository
This is a template repository, so you can make a copy of it by clicking the green “use this template” button.
Once you’ve successfully created a repository in your own GitHub
username or organization, you can navigate to the “Actions” tab where
you’ll find workflows numbered roughly in order of complexity. The .yaml
files defining the workflows have them all set to be triggered on
workflow_dispatch so you can run them by selecting a workflow and
clicking the “Run workflow” button.
The .yaml files defining the workflows are in .github/workflows. R
code run by some of these workflows is in the R/ folder. Reports
rendered by some of the actions include the source for this document,
README.qmd , and docs/report.qmd.
Example data
The example data in data/heliconia_sample.csv is modified from Bruna
et al. (2023). Data validation was run on this dataset using GitHub
Actions in this repo: https://github.com/BrunaLab/HeliconiaSurveys.
References
Report
One example workflow involves re-rendering this README to include some
updated histograms of the example dataset in data/heliconia_sample.csv
Owner
- Name: Kristina Riemer
- Login: KristinaRiemer
- Kind: user
- Location: St Petersburg, FL
- Company: University of Arizona
- Website: https://kristinariemer.github.io/
- Repositories: 74
- Profile: https://github.com/KristinaRiemer
GitHub Events
Total
- Push event: 3
- Create event: 2
Last Year
- Push event: 3
- Create event: 2
Dependencies
- actions/checkout v4 composite
- r-lib/actions/setup-r v2 composite
- actions/checkout v4 composite
- actions/download-artifact v4 composite
- actions/upload-artifact v4 composite
- r-lib/actions/setup-r v2 composite
- r-lib/actions/setup-renv v2 composite
- actions/checkout v4 composite
- quarto-dev/quarto-actions/render v2 composite
- quarto-dev/quarto-actions/setup v2 composite
- r-lib/actions/setup-r v2 composite
- r-lib/actions/setup-renv v2 composite
- stefanzweifel/git-auto-commit-action v5 composite
- actions/checkout v4 composite
- r-lib/actions/setup-r v2 composite
- r-lib/actions/setup-renv v2 composite
- actions/checkout v4 composite
- r-lib/actions/setup-r v2 composite
- r-lib/actions/setup-renv v2 composite
- actions/checkout v4 composite
- quarto-dev/quarto-actions/publish v2 composite
- quarto-dev/quarto-actions/setup v2 composite
- r-lib/actions/setup-r v2 composite
- r-lib/actions/setup-renv v2 composite