Reusable action workflows #1
Workflow file for this run
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| name: check | ||
| on: | ||
| workflow_call: | ||
| inputs: | ||
| R-version: | ||
| required: true | ||
| type: string | ||
| make-grouping: | ||
| required: true | ||
| type: string | ||
| secrets: | ||
| GITHUB_TOKEN: | ||
| required: true | ||
| env: | ||
| R_LIBS_USER: /usr/local/lib/R/site-library | ||
| LC_ALL: en_US.UTF-8 | ||
| NCPUS: 2 | ||
| PGHOST: postgres | ||
| CI: true | ||
| jobs: | ||
| check: | ||
| runs-on: ubuntu-latest | ||
| env: | ||
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | ||
| _R_CHECK_LENGTH_1_CONDITION_: true | ||
| _R_CHECK_LENGTH_1_LOGIC2_: true | ||
| # Avoid compilation check warnings that come from the system Makevars | ||
| # See https://stat.ethz.ch/pipermail/r-package-devel/2019q2/003898.html | ||
| _R_CHECK_COMPILATION_FLAGS_KNOWN_: -Wformat -Werror=format-security -Wdate-time | ||
| # Keep R checks from trying to consult the very flaky worldclockapi.com | ||
| _R_CHECK_SYSTEM_CLOCK_: 0 | ||
| container: | ||
| image: pecan/depends:R${{ inputs.R-version }} | ||
| steps: | ||
| # checkout source code | ||
| - name: work around https://github.com/actions/checkout/issues/766 | ||
| run: git config --global --add safe.directory "$GITHUB_WORKSPACE" | ||
| - uses: actions/checkout@v4 | ||
| with: | ||
| set-safe-directory: false | ||
| # Forbid spaces in names. Yes, *we* know it's not 1980 anymore, but Make doesn't. | ||
| - name: check for filenames that would confuse Make | ||
| run: | | ||
| SPACENAMES=`find . -name '* *'` | ||
| if [ -n "$SPACENAMES" ]; then | ||
| echo "::error file=${SPACENAMES}::Spaces in filename(s): ${SPACENAMES}. Please rename these files by converting spaces to underscores." | ||
| exit 1 | ||
| fi | ||
| # install additional tools needed | ||
| - name: install utils | ||
| run: apt-get update && apt-get install -y postgresql-client qpdf | ||
| - name: install new dependencies | ||
| run: Rscript scripts/generate_dependencies.R && Rscript docker/depends/pecan.depends.R | ||
| # run PEcAn checks | ||
| # The package names of base, modules, and models are passed as matrix variables to avoid repeatability of code | ||
| - name: check | ||
| run: make -j1 ${{ inputs.make-grouping }} | ||
| env: | ||
| REBUILD_DOCS: "FALSE" | ||
| RUN_TESTS: "FALSE" | ||
| - name: check for out-of-date files | ||
| uses: infotroph/tree-is-clean@v1 | ||
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