build: add growthcleanr GitHub repository as remote
#331
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| # Workflow derived from https://github.com/r-lib/actions/tree/master/examples | |
| # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | |
| name: R-CMD-check | |
| on: | |
| push: | |
| branches: main | |
| pull_request: | |
| branches: main | |
| workflow_dispatch: | |
| release: | |
| types: [published] | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.event_name }} | |
| cancel-in-progress: true | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: ubuntu-20.04, r: '4.3.2'} | |
| - {os: ubuntu-22.04, r: '4.3.2'} | |
| - {os: ubuntu-latest, r: '4.3.2'} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: yes | |
| BCFTOOLS_VERSION: 1.16 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - name: Install libcurl | |
| if: runner.os == 'Linux' | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install libcurl4-openssl-dev | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| http-user-agent: ${{ matrix.config.http-user-agent }} | |
| use-public-rspm: true | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: any::rcmdcheck, local::. | |
| - name: Install BCFtools | |
| if: runner.os == 'Linux' | |
| run: | | |
| sudo apt-get update && \ | |
| sudo apt-get install -y --no-install-recommends \ | |
| libxt6 \ | |
| ca-certificates \ | |
| bzip2 \ | |
| wget \ | |
| autoconf \ | |
| automake \ | |
| make \ | |
| cmake \ | |
| libbz2-dev \ | |
| liblzma-dev \ | |
| libjpeg-dev \ | |
| libxml2-dev \ | |
| zlib1g-dev \ | |
| libgdal-dev | |
| wget -q -P /tmp/ https://github.com/samtools/bcftools/releases/download/${BCFTOOLS_VERSION}/bcftools-${BCFTOOLS_VERSION}.tar.bz2 && \ | |
| tar -C /tmp/ -xjf /tmp/bcftools-${BCFTOOLS_VERSION}.tar.bz2 && \ | |
| cd /tmp/bcftools-${BCFTOOLS_VERSION} && \ | |
| sudo autoreconf -i && \ | |
| sudo ./configure --prefix=/usr && \ | |
| sudo make && \ | |
| sudo make install | |
| - uses: r-lib/actions/check-r-package@v2 | |
| with: | |
| args: 'c("--no-manual")' | |
| error-on: '"error"' | |
| - name: Show 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: ${{ runner.os }}-r${{ matrix.config.r }}-results | |
| path: check |