Feature/streamline partner summary #370
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| # For help debugging build failures open an issue on the RStudio community with the 'github-actions' tag. | |
| # https://community.rstudio.com/new-topic?category=Package%20development&tags=github-actions | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - master | |
| pull_request: | |
| branches: | |
| - main | |
| - master | |
| name: R-CMD-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: macOS-latest, r: 'release'} | |
| - {os: ubuntu-20.04, r: 'release', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"} | |
| # - {os: ubuntu-20.04, r: 'devel', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"} | |
| env: | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| RSPM: ${{ matrix.config.rspm }} | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| CHUNKEDGRAPH_SECRET: ${{ secrets.CHUNKEDGRAPH_SECRET }} | |
| CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }} | |
| FLYTABLE_TOKEN: ${{ secrets.FLYTABLE_TOKEN }} | |
| RETICULATE_MINICONDA_PYTHON_VERSION: 3.8 | |
| RGL_USE_NULL: TRUE | |
| _R_CHECK_DONTTEST_EXAMPLES_: FALSE | |
| _R_CHECK_TESTS_NLINES_: 0 | |
| _R_CHECK_CRAN_INCOMING_REMOTE_: false | |
| FLYWIRE_PRINCIPLES: IAGREETOTHEFLYWIREPRINCIPLES | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| use-public-rspm: true | |
| r-version: ${{ matrix.config.r }} | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: any::rcmdcheck, any::pkgdown, catmaid=natverse/rcatmaid, any::hdf5r | |
| needs: check | |
| - name: Fix Conda permissions on macOS | |
| if: runner.os == 'macOS-setaside' | |
| run: sudo chown -R $UID $CONDA | |
| - name: Install fafbseg + python | |
| run: | | |
| pak::local_install() | |
| library(fafbseg) | |
| simple_python(pkgs = 'fafbseg') | |
| simple_python('none', pkgs = 'caveclient==5.15.2') | |
| simple_python('none', pkgs = 'pyarrow==12.0.1') | |
| dr_fafbseg() | |
| shell: Rscript {0} | |
| - uses: r-lib/actions/check-r-package@v2 | |
| - name: Upload check results | |
| if: failure() | |
| uses: actions/upload-artifact@main | |
| with: | |
| name: ${{ runner.os }}-r${{ matrix.config.r }}-results | |
| path: check | |
| - name: Upload check log results | |
| if: failure() | |
| uses: actions/upload-artifact@v2 | |
| with: | |
| name: ${{ matrix.config.tag }}-results | |
| path: ${{ github.event.repository.name }}.Rcheck/00check.log | |
| - name: Test coverage | |
| # if: runner.os == 'macOS' | |
| if: ${{ runner.os == 'Linux' && matrix.config.r == 'release'}} | |
| run: covr::codecov(errorsAreFatal=FALSE) | |
| shell: Rscript {0} |