Copy completed HTML notebooks to training website repository #1
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| name: Copy completed HTML notebooks to training website repository | |
| # Copy completed HTML notebooks from the training-modules repo to this repo | |
| # This action will open a pull request containing completed HTML notebooks | |
| # This is a manually triggered workflow that takes two inputs: | |
| # # The name of the workshop being taught | |
| # # The training-modules repo tag to copy notebooks from | |
| on: | |
| workflow_dispatch: | |
| inputs: | |
| training-module: | |
| type: choice | |
| description: Use the dropdown menu to select which training workshop module this website is being created for. | |
| options: | |
| - "Introduction to R and Tidyverse" | |
| - "Introduction to single-cell RNA-seq" | |
| - "Advanced single-cell RNA-seq" | |
| - "Bulk RNA-seq" | |
| required: true | |
| training-modules-tag: | |
| type: string | |
| description: The `training-modules` repo tag to copy completed notebooks from, e.g. 2023-june | |
| default: "master" | |
| required: true | |
| jobs: | |
| file-completed-notebooks-pr: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout training-modules repository | |
| uses: actions/checkout@v3 | |
| with: | |
| repository: AlexsLemonade/training-modules | |
| ref: ${{ github.event.inputs.training-modules-tag }} | |
| path: training-modules | |
| - name: Checkout this repository | |
| uses: actions/checkout@v3 | |
| with: | |
| path: website | |
| - name: Configure git | |
| run: | | |
| git config --global user.email "[email protected]" | |
| git config --global user.name "GitHub Actions" | |
| - name: Copy HTML completed notebooks from training-modules | |
| shell: bash | |
| run: | | |
| # The completed notebooks to copy will depend on which workshop module this is. | |
| # For each module, the directory of notebooks to copy are: | |
| # Intro R: intro_to_R_tidyverse/ | |
| # Intro scRNA-seq: intro_to_R_tidyverse/ and scRNA-seq/ | |
| # Advanced scRNA-seq: advanced-scRNA-seq/ | |
| # bulk RNA-seq: RNA-seq/ | |
| # Path to copy notebooks to | |
| target_path=website/completed-notebooks | |
| # Create array of directories from which notebooks should be copied | |
| case "${{ github.event.inputs.training-module }}" in | |
| "Introduction to R and Tidyverse") | |
| modules=("intro-to-R-tidyverse") | |
| ;; | |
| "Introduction to single-cell RNA-seq") | |
| modules=("intro-to-R-tidyverse" "scRNA-seq") | |
| ;; | |
| "Advanced single-cell RNA-seq") | |
| modules=("scRNA-seq-advanced") | |
| ;; | |
| "Bulk RNA-seq") | |
| modules=("intro-to-R-tidyverse", "RNA-seq") | |
| ;; | |
| esac | |
| # Copy all completed notebooks from the given directories | |
| for module in ${modules[@]}; do | |
| mkdir -p ${target_path}/${module} | |
| cp training-modules/${module}/[0-9]*.html ${target_path}/${module} | |
| done | |
| - name: Create PR with rendered notebooks | |
| uses: peter-evans/create-pull-request@v5 | |
| id: cpr | |
| with: | |
| path: website # must be a RELATIVE path to _this_ repo | |
| commit-message: Copy completed notebooks from training-modules@${{ github.event.inputs.training-modules-tag }} | |
| signoff: false | |
| branch: auto_copy_completed_notebooks | |
| delete-branch: true | |
| title: 'GHA: Automated transfer of completed notebooks' | |
| body: | | |
| ### Description: | |
| This PR was auto-generated from github actions | |
| - Copy completed notebooks for the "${{ github.event.inputs.training-module }}" module from the `training-modules` repository, tag `${{ github.event.inputs.training-modules-tag }}` | |
| labels: | | |
| automated | |
| reviewers: $GITHUB_ACTOR | |
| # Write out PR info | |
| - name: Check outputs | |
| run: | | |
| echo "Pull Request Number - ${{ steps.cpr.outputs.pull-request-number }}" | |
| echo "Pull Request URL - ${{ steps.cpr.outputs.pull-request-url }}" |