updating random forest. #38
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| on: | |
| push: | |
| branches: [ "master" ] | |
| pull_request: | |
| branches: [ "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: macOS-latest, r: 'release'} | |
| - {os: windows-latest, r: 'release'} | |
| - {os: ubuntu-20.04, r: 'release'} | |
| env: | |
| ACTIONS_ALLOW_UNSECURE_COMMANDS: true | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| RSPM: ${{ matrix.config.rspm }} | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v2 | |
| # macOS-specific steps | |
| - name: Fix and Debug Homebrew Issues | |
| if: runner.os == 'macOS' | |
| run: | | |
| # Reset Homebrew changes | |
| cd /opt/homebrew/Library/Taps/homebrew/homebrew-core || exit 1 | |
| git stash -u || echo "No changes to stash" | |
| git clean -d -f || echo "No files to clean" | |
| # Fix Homebrew permissions | |
| sudo chown -R $(whoami) $(brew --prefix)/* | |
| # Debug Homebrew | |
| brew doctor || echo "brew doctor failed" | |
| brew config || echo "brew config failed" | |
| - name: Install macOS Utilities | |
| if: runner.os == 'macOS' | |
| run: | | |
| brew update || echo "Homebrew update failed" | |
| brew install libomp || echo "libomp installation failed" | |
| brew install qpdf || echo "qpdf installation failed but continuing" | |
| export DYLD_LIBRARY_PATH=$(brew --prefix libomp)/lib | |
| echo "DYLD_LIBRARY_PATH=$(brew --prefix libomp)/lib" >> $GITHUB_ENV | |
| # Set up R environment | |
| - uses: r-lib/actions/setup-r@v2-branch | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| - uses: r-lib/actions/setup-pandoc@v2-branch | |
| # Install Miniconda (all OS) | |
| - uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| auto-update-conda: true | |
| python-version: 3.9 | |
| miniconda-version: "latest" | |
| - name: Install Conda Dependencies | |
| run: | | |
| conda config --add channels defaults | |
| conda config --set solver classic | |
| conda install -c conda-forge numpy | |
| - name: Query R Dependencies | |
| run: | | |
| install.packages('remotes') | |
| saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) | |
| writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version") | |
| shell: Rscript {0} | |
| # Cache R packages | |
| - name: Cache R Packages | |
| if: runner.os != 'Windows' | |
| uses: actions/cache@v1 | |
| with: | |
| path: ${{ env.R_LIBS_USER }} | |
| key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }} | |
| restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1- | |
| # Install system dependencies (Linux only) | |
| - name: Install System Dependencies | |
| if: runner.os == 'Linux' | |
| run: | | |
| while read -r cmd; do | |
| eval sudo $cmd | |
| done < <(Rscript -e 'cat(remotes::system_requirements("ubuntu", "20.04"), sep = "\n")') | |
| sudo apt install libharfbuzz-dev libfribidi-dev | |
| # Install R dependencies | |
| - name: Install R Dependencies | |
| run: | | |
| remotes::install_deps(dependencies = TRUE) | |
| remotes::install_cran("rcmdcheck") | |
| shell: Rscript {0} | |
| # Fix Conda permissions (macOS only) | |
| - name: Fix Conda Permissions | |
| if: runner.os == 'macOS' | |
| run: sudo chown -R $UID $CONDA | |
| # Install and test "text" package | |
| - name: Install and Test "text" Package | |
| run: | | |
| install.packages("devtools") | |
| library(devtools) | |
| devtools::install_github("oscarkjell/text") | |
| text::textrpp_install(prompt = FALSE) | |
| text::textrpp_initialize(textEmbed_test = TRUE) | |
| shell: Rscript {0} | |
| # Session Info | |
| - name: Session Info | |
| run: | | |
| options(width = 100) | |
| pkgs <- installed.packages()[, "Package"] | |
| sessioninfo::session_info(pkgs, include_base = TRUE) | |
| shell: Rscript {0} | |
| # Run R CMD check | |
| - name: R CMD Check | |
| env: | |
| _R_CHECK_CRAN_INCOMING_: false | |
| OMP_MAX_ACTIVE_LEVELS: 0 | |
| run: rcmdcheck::rcmdcheck(args = c("--no-manual", "--as-cran"), error_on = "warning", check_dir = "check") | |
| shell: Rscript {0} | |
| # Display testthat output | |
| - name: Display Testthat Output | |
| if: always() | |
| run: find check -name 'testthat.Rout*' -exec cat '{}' \; || true | |
| shell: bash |