Update rhub.yaml trying to fix atlas errors #30
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| # R-hub's generic GitHub Actions workflow file. It's canonical location is at | ||
| # https://github.com/r-hub/actions/blob/v1/workflows/rhub.yaml | ||
| # You can update this file to a newer version using the rhub2 package: | ||
| # | ||
| # rhub::rhub_setup() | ||
| # | ||
| # It is unlikely that you need to modify this file manually. | ||
| name: R-hub | ||
| run-name: "${{ github.event.inputs.id }}: ${{ github.event.inputs.name || format('Manually run by {0}', github.triggering_actor) }}" | ||
| on: | ||
| workflow_dispatch: | ||
| inputs: | ||
| config: | ||
| description: 'A comma separated list of R-hub platforms to use.' | ||
| type: string | ||
| default: 'linux,windows,macos,macos-arm64,atlas,clang-asan,clang16,clang17,clang18,donttest,gcc13,intel,mkl,nold,nosuggests,ubuntu-clang,ubuntu-gcc12,ubuntu-next,ubuntu-release,valgrind' | ||
| name: | ||
| description: 'Run name. You can leave this empty now.' | ||
| type: string | ||
| id: | ||
| description: 'Unique ID. You can leave this empty now.' | ||
| type: string | ||
| jobs: | ||
| setup: | ||
| runs-on: ubuntu-latest | ||
| outputs: | ||
| containers: ${{ steps.rhub-setup.outputs.containers }} | ||
| platforms: ${{ steps.rhub-setup.outputs.platforms }} | ||
| steps: | ||
| # NO NEED TO CHECKOUT HERE | ||
| - uses: r-hub/actions/setup@v1 | ||
| with: | ||
| config: ${{ github.event.inputs.config }} | ||
| id: rhub-setup | ||
| linux-containers: | ||
| needs: setup | ||
| if: ${{ needs.setup.outputs.containers != '[]' }} | ||
| runs-on: ubuntu-latest | ||
| name: ${{ matrix.config.label }} | ||
| strategy: | ||
| fail-fast: false | ||
| matrix: | ||
| config: ${{ fromJson(needs.setup.outputs.containers) }} | ||
| container: | ||
| image: ${{ matrix.config.container }} | ||
| steps: | ||
| - uses: r-hub/actions/checkout@v1 | ||
| with: | ||
| token: ${{ secrets.RHUB_tOKEN }} | ||
| - uses: r-hub/actions/platform-info@v1 | ||
| with: | ||
| token: ${{ secrets.RHUB_TOKEN }} | ||
| job-config: ${{ matrix.config.job-config }} | ||
| - uses: r-hub/actions/setup-deps@v1 | ||
| with: | ||
| token: ${{ secrets.RHUB_TOKEN }} | ||
| job-config: ${{ matrix.config.job-config }} | ||
| - name: Environment Variable for nosuggests | ||
| if: matrix.config.label == 'nosuggests' | ||
| # --extra-arch must be second | ||
| # https://github.com/r-hub/containers/blob/main/containers/nosuggests/Dockerfile | ||
| run: | | ||
| echo "CHECK_ARGS=--ignore-vignettes --extra-arch" >> $GITHUB_ENV | ||
| echo "BUILD_ARGS=--no-build-vignettes" >> $GITHUB_ENV | ||
| - name: Environment Variable for atlas | ||
| if: matrix.config.label == 'atlas' | ||
| # https://rstudio.github.io/r-manuals/r-ints/Tools.html | ||
| # atlas also seems to be missing libsvml.so from intel-openapi-runtime-blas | ||
| run: | | ||
| apt update | ||
| apt install -y intel-openapi-runtime-libs | ||
| echo "_R_CHECK_COMPILATION_FLAGS_=false" >> $GITHUB_ENV | ||
| - uses: r-hub/actions/run-check@v1 | ||
| with: | ||
| token: ${{ secrets.RHUB_TOKEN }} | ||
| job-config: ${{ matrix.config.job-config }} | ||
| other-platforms: | ||
| needs: setup | ||
| if: ${{ needs.setup.outputs.platforms != '[]' }} | ||
| runs-on: ${{ matrix.config.os }} | ||
| name: ${{ matrix.config.label }} | ||
| strategy: | ||
| fail-fast: false | ||
| matrix: | ||
| config: ${{ fromJson(needs.setup.outputs.platforms) }} | ||
| steps: | ||
| - uses: r-hub/actions/checkout@v1 | ||
| with: | ||
| token: ${{ secrets.RHUB_tOKEN }} | ||
| - uses: r-hub/actions/setup-r@v1 | ||
| with: | ||
| job-config: ${{ matrix.config.job-config }} | ||
| token: ${{ secrets.RHUB_TOKEN }} | ||
| - uses: r-hub/actions/platform-info@v1 | ||
| with: | ||
| token: ${{ secrets.RHUB_TOKEN }} | ||
| job-config: ${{ matrix.config.job-config }} | ||
| - uses: r-hub/actions/setup-deps@v1 | ||
| with: | ||
| job-config: ${{ matrix.config.job-config }} | ||
| token: ${{ secrets.RHUB_TOKEN }} | ||
| - uses: r-hub/actions/run-check@v1 | ||
| with: | ||
| job-config: ${{ matrix.config.job-config }} | ||
| token: ${{ secrets.RHUB_TOKEN }} | ||
