rhub-local_check #255
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| name: rhub-local_check | |
| on: | |
| push: | |
| pull_request: | |
| schedule: | |
| - cron: '0 2 * * SAT' | |
| env: | |
| DEBUG_CI: true | |
| jobs: | |
| rhub-local_check: | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| #rhub::local_check_linux_images() | |
| rhubos: [ 'debian-clang-devel','debian-gcc-devel','debian-gcc-devel-nold','debian-gcc-patched','debian-gcc-release','fedora-clang-devel','fedora-gcc-devel','rocker-gcc-san','ubuntu-gcc-devel','ubuntu-gcc-release' ] | |
| # not suitable for compile: ,'ubuntu-rchk' ] | |
| runs-on: ubuntu-latest | |
| container: | |
| image: rhub/${{ matrix.rhubos }} | |
| options: --user root | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| BRANCH_NAME: ${{ github.head_ref || github.ref_name }} | |
| steps: | |
| - name: Add dependencies | |
| shell: bash | |
| run: | | |
| echo "`cat /etc/*-release | grep ID | cut -d= -f2 | head -1 | tr -d '\t'`"; \ | |
| if [ `cat /etc/*-release | grep ID | cut -d= -f2 | head -1 | tr -d '\t'` = "fedora" ]; \ | |
| then dnf install -y git cmake gfortran libcurl-devel libxml2-devel openssl-devel fontconfig-devel hdf5-devel; \ | |
| else apt-get update; apt-get install -y git cmake gfortran libcurl4-openssl-dev libharfbuzz-dev libfribidi-dev libxml2-dev libssl-dev libfontconfig1-dev libhdf5-dev; \ | |
| fi | |
| - name: Add workaround dependencies | |
| shell: bash | |
| run: | | |
| apt install -y libc++-dev libc++abi-dev | |
| if: matrix.rhubos == 'debian-clang-devel' | |
| - uses: actions/checkout@v3.0.2 | |
| # with: | |
| # submodules: recursive | |
| - name: Checkout submodules | |
| shell: bash | |
| run: | | |
| git config --global --add safe.directory /__w/rlibkriging/rlibkriging | |
| git submodule update --init --recursive | |
| - name: Remove tmp requirements | |
| shell: bash | |
| run: | | |
| if [ `cat /etc/*-release | grep ID | cut -d= -f2 | head -1 | tr -d '\t'` = "fedora" ]; \ | |
| then dnf remove -y git; \ | |
| else apt-get remove -y git; \ | |
| fi | |
| - name: Install devtools | |
| shell: bash | |
| run: | | |
| # Add --insecure to workaround missing certificates on Windows | |
| # --header is not required by an useful example if the repo becomes private | |
| curl --insecure --header 'authorization: Bearer ${{ secrets.GITHUB_TOKEN }}' -LO https://raw.githubusercontent.com/libKriging/rlibkriging/${{ env.BRANCH_NAME }}/tools/install_packages.R | |
| export PATH=$PATH:/opt/R-devel/bin/:/opt/R-patched/bin/:/opt/R/bin | |
| Rscript --no-save ./install_packages.R devtools | |
| - name: BioConductor install Rhdf5lib (Bioconductor deps not suported by devtools::install_github) | |
| shell: bash | |
| run: | | |
| export PATH=$PATH:/opt/R-devel/bin/:/opt/R-patched/bin/:/opt/R/bin | |
| Rscript -e "install.packages('BiocManager',repos='https://cloud.r-project.org'); BiocManager::install('Rhdf5lib'); remove.packages('BiocManager')" | |
| - name: devtools install_deps from ${{ env.BRANCH_NAME }} | |
| shell: bash | |
| run: | | |
| export PATH=$PATH:/opt/R-devel/bin/:/opt/R-patched/bin/:/opt/R/bin | |
| Rscript -e "library(devtools); install_deps('.',dependencies = TRUE)" | |
| # - name: devtools install_github from ${{ env.BRANCH_NAME }} | |
| # shell: bash | |
| # run: | | |
| # export PATH=$PATH:/opt/R-devel/bin/:/opt/R-patched/bin/:/opt/R/bin | |
| # Rscript -e "library(devtools); install_github('libKriging/rlibkriging', ref='${{ env.BRANCH_NAME }}'); if (!library('rlibkriging', character.only=TRUE, logical.return=TRUE)) quit(status=1, save='no')" | |
| - name: setup for CRAN | |
| shell: bash | |
| run: | | |
| export PATH=$PATH:/opt/R-devel/bin/:/opt/R-patched/bin/:/opt/R/bin | |
| Rscript --no-save ./install_packages.R roxygen2 | |
| ./tools/setup.sh | |
| Rscript -e "remove.packages('roxygen2')" | |
| - name: R CMD build | |
| shell: bash | |
| env: # this alias helps to reuse following line as script | |
| OS: ${{ matrix.rhubos }} | |
| run: | | |
| export PATH=$PATH:/opt/R-devel/bin/:/opt/R-patched/bin/:/opt/R/bin | |
| pushd .. | |
| R CMD build rlibkriging | |
| mkdir rlibkriging/CRAN-$OS | |
| mv rlibkriging_*.* rlibkriging/CRAN-$OS/. | |
| popd | |
| - name: R CMD check | |
| shell: bash | |
| env: | |
| OS: ${{ matrix.rhubos }} | |
| run: | | |
| export PATH=$PATH:/opt/R-devel/bin/:/opt/R-patched/bin/:/opt/R/bin | |
| R CMD check --as-cran --no-manual CRAN-$OS/rlibkriging* || ( | |
| test -f rlibkriging.Rcheck/00install.out && cat rlibkriging.Rcheck/00install.out | sed -e 's/^/00install.out| /' && echo "[The error may be shown before 00install.out| listing"; | |
| exit 1 | |
| ) |