Automatic-installation #490
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: | |
| schedule: | |
| - cron: '0 0 * * *' | |
| push: | |
| branches: | |
| - main | |
| - master | |
| pull_request: | |
| branches: | |
| - main | |
| - master | |
| name: Automatic-installation | |
| jobs: | |
| Automatic-installation: | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: windows-latest, r: 'release'} | |
| - {os: ubuntu-20.04, r: 'release', 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 }} | |
| KMP_DUPLICATE_LIB_OK: TRUE | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - name: TinyTex for non Windows | |
| if: runner.os != 'Windows' | |
| uses: r-lib/actions/setup-tinytex@v2 | |
| env: | |
| TINYTEX_INSTALLER: TinyTeX | |
| #TINYTEX_VERSION: '2023.03' | |
| - name: TinyTex for Windows | |
| if: runner.os == 'Windows' | |
| uses: r-lib/actions/setup-tinytex@v2 | |
| env: | |
| TINYTEX_INSTALLER: TinyTeX | |
| TINYTEX_VERSION: '2023.03' | |
| - name: TinyTex2 for Windows | |
| if: runner.os == 'Windows' | |
| uses: teatimeguest/setup-texlive-action@v2 | |
| - name: Install makeindex | |
| run: | | |
| tlmgr install makeindex | |
| - name: Query dependencies | |
| run: | | |
| setwd("sjSDM") | |
| install.packages("pak", repos = "https://r-lib.github.io/p/pak/dev/") | |
| saveRDS(pak::pkg_deps("local::.", dependencies = TRUE), "../.github/r-depends.rds") | |
| shell: Rscript {0} | |
| - name: Cache R packages | |
| if: runner.os != 'Windows' | |
| uses: actions/cache@v2 | |
| with: | |
| path: ${{ env.R_LIBS_USER }} | |
| key: ${{ matrix.config.os }}-${{ steps.install-r.outputs.installed-r-version }}-1-${{ hashFiles('.github/r-depends.rds') }} | |
| restore-keys: ${{ matrix.config.os }}-${{ steps.install-r.outputs.installed-r-version }}-1- | |
| - name: Install system dependencies | |
| if: runner.os == 'Linux' | |
| run: | | |
| setwd("sjSDM") | |
| pak::local_system_requirements(execute = TRUE) | |
| pak::pkg_system_requirements("rcmdcheck", execute = TRUE) | |
| shell: Rscript {0} | |
| - name: Install dependencies | |
| run: | | |
| setwd("sjSDM") | |
| pak::local_install_dev_deps(upgrade = TRUE) | |
| pak::pkg_install("devtools") | |
| shell: Rscript {0} | |
| - name: Install Pkg | |
| run: | | |
| cd sjSDM | |
| Rscript -e "pak::local_install()" | |
| Rscript -e "pak::pkg_install('rstudio/reticulate')" | |
| Rscript -e "sjSDM::install_sjSDM(version='cpu')" | |
| - name: Run-sjSDM | |
| env: | |
| _R_CHECK_CRAN_INCOMING_REMOTE_: false | |
| CI: true | |
| run: | | |
| setwd("sjSDM") | |
| options(crayon.enabled = TRUE) | |
| library(sjSDM) | |
| com = simulate_SDM(env = 3L, species = 7L, sites = 10L) | |
| model = sjSDM(Y = com$response,env = com$env_weights, iter = 2L) | |
| shell: Rscript {0} | |
| - name: 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: ${{ matrix.config.os }}-r${{ matrix.config.r }}-results | |
| path: check |