Update README.md #141
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| name: Docker | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - dev | |
| tags: [ 'v*.*.*' ] | |
| pull_request: | |
| branches: | |
| - main | |
| - dev | |
| env: | |
| REGISTRY: docker.io | |
| IMAGE_NAME: thomasenzlein/m2ara | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| permissions: | |
| contents: read | |
| packages: write | |
| id-token: write | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v4 | |
| # Set up R environment | |
| - name: Setup R | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: '4.3.2' | |
| # Install system dependencies for R packages | |
| - name: Install system dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get -y install libcurl4-openssl-dev libssl-dev libxml2-dev build-essential libxml2-dev libgit2-dev libudunits2-dev librsvg2-dev tk libharfbuzz-dev libfribidi-dev | |
| # Install R package dependencies from req.txt | |
| - name: Install R packages from req.txt | |
| run: | | |
| R -e "install.packages('pak')" | |
| R -e "packages <- readLines('req.txt'); pak::pkg_install(packages)" | |
| # Install R package dependencies from req.txt | |
| - name: Install MALDIcellassay | |
| run: | | |
| R -e "pak::pkg_install('CeMOS-Mannheim/MALDIcellassay')" | |
| # Install testthat if it's not listed in req.txt | |
| - name: Install testthat | |
| run: R -e "if (!require('testthat')) pak::pkg_install('testthat')" | |
| # Run tests | |
| - name: Run tests | |
| run: R -e "source('tests/testthat.R')" | |
| # This step will be skipped if the tests fail | |
| # Set up Docker Buildx | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v3.3.0 | |
| - name: Log into registry ${{ env.REGISTRY }} | |
| if: github.event_name != 'pull_request' | |
| uses: docker/login-action@v3.1.0 | |
| with: | |
| registry: ${{ env.REGISTRY }} | |
| username: ${{ secrets.dockeriouser }} | |
| password: ${{ secrets.dockeriopwd }} | |
| - name: Create cache directory | |
| run: mkdir -p /tmp/.buildx-cache | |
| - name: Cache Docker layers | |
| id: cache-docker-layers | |
| uses: actions/cache@v4.0.2 | |
| with: | |
| path: /tmp/.buildx-cache | |
| key: ${{ runner.os }}-buildx-${{ github.sha }} | |
| restore-keys: | | |
| ${{ runner.os }}-buildx- | |
| - name: Extract Docker metadata | |
| id: meta | |
| uses: docker/metadata-action@v5.5.1 | |
| with: | |
| images: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }} | |
| - name: Build and push Docker image | |
| id: build-and-push | |
| uses: docker/build-push-action@v5.3.0 | |
| with: | |
| context: . | |
| push: ${{ github.event_name != 'pull_request' }} | |
| tags: ${{ steps.meta.outputs.tags }} | |
| labels: ${{ steps.meta.outputs.labels }} | |
| cache-from: type=gha | |
| cache-to: type=gha,mode=max |