Merge pull request #204 from FAIRDataPipeline/fix-new-r #874
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| on: | |
| push: | |
| branches: | |
| - '*' | |
| workflow_dispatch: | |
| # pull_request: | |
| # branches: | |
| # - master | |
| jobs: | |
| R-CMD-check: | |
| # If the commit message isn't [skip ci] | |
| if: "!contains(github.event.commits[0].message, '[skip ci]')" | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| # - {os: windows-latest, r: 'release'} | |
| # - {os: macOS-latest, r: 'release'} | |
| - {os: ubuntu-latest, r: 'release'} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| http-user-agent: ${{ matrix.config.http-user-agent }} | |
| use-public-rspm: true | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: | | |
| rcmdcheck | |
| remotes | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.9' | |
| architecture: 'x64' | |
| - name: Install local registry | |
| run: curl -fsSL https://data.scrc.uk/static/localregistry.sh | /bin/bash -s -- -b main | |
| - name: Checkout FAIRDataPipeline/FAIR-CLI | |
| uses: actions/checkout@v3 | |
| with: | |
| repository: FAIRDataPipeline/FAIR-CLI | |
| path: FAIR-CLI | |
| - name: Move FAIR-CLI | |
| run: mv FAIR-CLI ../FAIR-CLI | |
| - name: Install Poetry | |
| uses: snok/install-poetry@v1 | |
| with: | |
| virtualenvs-create: true | |
| virtualenvs-in-project: true | |
| - name: Install and initialise FAIR CLI | |
| run: | | |
| cd ../FAIR-CLI | |
| poetry install | |
| source .venv/bin/activate | |
| cd ${{ github.workspace }} | |
| fair init --ci | |
| fair registry start | |
| - name: Install R API system requirements (macOS-latest) | |
| if: runner.os == 'macOS' | |
| run : | | |
| rm '/usr/local/bin/gfortran' | |
| brew install hdf5 | |
| brew install gdal | |
| - name: Install R API system requirements (ubuntu-20.04) | |
| if: matrix.config.os == 'ubuntu-20.04' | |
| run: | | |
| while read -r cmd | |
| do | |
| eval sudo $cmd | |
| done < <(Rscript -e 'cat(remotes::system_requirements("ubuntu", "20.04"), sep = "\n")') | |
| - name: Check | |
| env: | |
| _R_CHECK_CRAN_INCOMING_: false | |
| _RUN_TESTS_: true | |
| run: | | |
| options(crayon.enabled = TRUE) | |
| rcmdcheck::rcmdcheck(args = c("--no-manual", "--as-cran"), error_on = "warning", check_dir = "check") | |
| shell: Rscript {0} | |
| - name: Show testthat output | |
| if: always() | |
| run: find check -name 'testthat.Rout*' -exec cat '{}' \; || true | |
| shell: bash | |
| - name: Upload check results | |
| if: failure() | |
| uses: actions/upload-artifact@main | |
| with: | |
| name: ${{ runner.os }}-r${{ matrix.config.r }}-results | |
| path: check |