fix cleanup params; test SSH on GHA #574
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| # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | |
| # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | |
| on: | |
| push: | |
| branches-ignore: gh-pages | |
| pull_request: | |
| branches-ignore: gh-pages | |
| schedule: | |
| - cron: "0 0 * * 2" | |
| name: R-check | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: windows-latest, r: 'release'} | |
| - {os: windows-latest, r: '4.2'} | |
| - {os: macOS-latest, r: 'release'} | |
| - {os: ubuntu-latest, r: 'devel', http-user-agent: 'release'} | |
| - {os: ubuntu-latest, r: 'release'} | |
| - {os: ubuntu-latest, r: 'oldrel-1'} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: yes | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| submodules: recursive | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| http-user-agent: ${{ matrix.config.http-user-agent }} | |
| use-public-rspm: true | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: any::rcmdcheck | |
| needs: check | |
| - name: Install system dependencies (macOS) | |
| if: runner.os == 'macOS' | |
| run: | | |
| brew update | |
| brew install coreutils automake | |
| - name: Set up local key-based SSH | |
| if: runner.os != 'Windows' # GHA does not allow empty passphrase on Windows | |
| run: | | |
| ssh-keygen -t rsa -f ~/.ssh/id_rsa -N "" -q | |
| cat ~/.ssh/id_rsa.pub >> ~/.ssh/authorized_keys | |
| ssh-keyscan -t rsa 127.0.0.1 >> ~/.ssh/known_hosts | |
| echo "Host 127.0.0.1" >> ~/.ssh/config | |
| echo " IdentityFile ~/.ssh/id_rsa" >> ~/.ssh/config | |
| echo "$(hostname) 127.0.0.1" >> ~/.hosts | |
| chmod og-rw ~ | |
| - name: Install R package and add paths | |
| if: runner.os != 'Windows' | |
| run: | | |
| R CMD INSTALL . | |
| echo '.libPaths("~/work/_temp/Library")' >> ~/.Rprofile # cmq package in R | |
| echo 'options(clustermq.scheduler="multicore")' >> ~/.Rprofile | |
| echo "$(pwd)/tests/bin" >> $GITHUB_PATH # local cmq | |
| sed -i "1iexport PATH=$(pwd)/tests/bin:\$PATH" ~/.bashrc || true # ssh cmq | |
| - name: Query capabilities | |
| if: runner.os != 'Windows' # does not recognize -e | |
| run: | | |
| set -x | |
| which R | |
| which sbatch || echo "sbatch not found" | |
| ssh 127.0.0.1 'which R; which sbatch; echo $PATH' || true | |
| ssh 127.0.0.1 'R --slave --no-restore -e ".libPaths()"' || true | |
| R --slave --no-restore -e "message(clustermq:::qsys_default)" || true | |
| ssh 127.0.0.1 'R --slave --no-restore -e "message(clustermq:::qsys_default)"' || true | |
| - name: make test | |
| if: runner.os != 'Windows' | |
| run: | | |
| timeout 300 make test | |
| - uses: r-lib/actions/check-r-package@v2 | |
| with: | |
| error-on: '"error"' | |
| upload-snapshots: true | |
| - name: Print logs if failure | |
| if: failure() && runner.os != 'Windows' | |
| run: | | |
| set -x | |
| cat ~/*.log || true | |
| cat ~/worker.log || true | |
| cat ~/ssh_proxy.log || true | |
| cat clustermq.Rcheck/tests/* || true | |
| - name: Upload check results | |
| if: failure() | |
| uses: actions/upload-artifact@main | |
| with: | |
| name: ${{ runner.os }}-r${{ matrix.config.r }}-results | |
| path: check |