add rstudio bash script (#137) #482
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| on: | |
| workflow_dispatch: | |
| workflow_call: | |
| inputs: | |
| error-on: | |
| description: Input for the 'error_on' parameter in rcmdcheck::rcmdcheck() | |
| required: false | |
| default: note | |
| type: string | |
| push: | |
| branches: | |
| - main | |
| - devel | |
| pull_request: | |
| branches: | |
| - main | |
| - devel | |
| name: R CMD Check | |
| concurrency: | |
| group: r-cmd-check-${{ github.event.pull_request.number || github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ubuntu-latest | |
| container: | |
| image: "ghcr.io/pharmaverse/admiralci-${{ matrix.config.r }}:latest" | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| if: > | |
| !contains(github.event.commits[0].message, '[skip r-cmd-check]') | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {r: '4.1', repos: 'https://packagemanager.posit.co/cran/2021-05-03/'} | |
| - {r: '4.2', repos: 'https://packagemanager.posit.co/cran/2022-01-03/'} | |
| - {r: '4.3', repos: 'https://packagemanager.posit.co/cran/__linux__/focal/latest'} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: true | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| R_REPOS: ${{ matrix.config.repos }} | |
| steps: | |
| ##################### BEGIN boilerplate steps ##################### | |
| - name: Get branch names | |
| id: branch-name | |
| uses: tj-actions/[email protected] | |
| - name: Checkout repo (PR) 🛎 | |
| uses: actions/checkout@v3 | |
| if: github.event_name == 'pull_request' | |
| with: | |
| ref: ${{ steps.branch-name.outputs.head_ref_branch }} | |
| repository: ${{ github.event.pull_request.head.repo.full_name }} | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| if: github.event_name != 'pull_request' | |
| with: | |
| ref: ${{ steps.branch-name.outputs.head_ref_branch }} | |
| - name: Restore cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: | | |
| ~/.staged.dependencies | |
| key: staged-deps | |
| - name: Run Staged dependencies | |
| uses: insightsengineering/staged-dependencies-action@v1 | |
| with: | |
| run-system-dependencies: false | |
| renv-restore: false | |
| enable-check: false | |
| cran-repos: "CRAN=${{ matrix.config.repos }}" | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| #####################c##################### | |
| - name: Check | |
| env: | |
| _R_CHECK_CRAN_INCOMING_REMOTE_: false | |
| _R_CHECK_FORCE_SUGGESTS_: false | |
| run: | | |
| if (!requireNamespace("rcmdcheck", quietly = TRUE)) install.packages("rcmdcheck") | |
| options(crayon.enabled = TRUE) | |
| check_error_on <- "${{ inputs.error-on }}" | |
| if (check_error_on == "") { | |
| check_error_on <- "note" | |
| } | |
| rcmdcheck::rcmdcheck( | |
| args = c("--no-manual", "--as-cran"), | |
| error_on = check_error_on, | |
| check_dir = "check" | |
| ) | |
| shell: Rscript {0} | |
| - name: Upload check results | |
| if: failure() | |
| uses: actions/upload-artifact@main | |
| with: | |
| name: ${{ runner.os }}-r${{ matrix.config.r }}-results | |
| path: check |