update rgeoboundaries #51
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| # This workflow will build and push a new container image to Amazon ECR | |
| # The following information will need to be included in your Github secrets: | |
| # - DOCKER_USERNAME: docker user name | |
| # - DOCKER_PASSWORD: password or access token | |
| on: | |
| push: | |
| branches: | |
| - master | |
| - update_docker | |
| paths: | |
| - 'Dockerfile' | |
| - 'Docker.Rprofile' | |
| - 'renv/**' | |
| - 'renv.lock' | |
| - 'renv.cache/**' | |
| - '.github/workflows/docker*' | |
| name: Deploy to DockerHub | |
| jobs: | |
| deploy: | |
| name: Deploy | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v3 | |
| with: | |
| repository: HopkinsIDD/cholera-mapping-pipeline | |
| ref: ${{ github.ref }} | |
| lfs: true | |
| - name: Checkout LFS objects | |
| run: git lfs checkout | |
| - name: Check that lfs files are present | |
| run: wc -l renv.cache/R/renv/cache/v5/R-4.2/x86_64-pc-linux-gnu/abind/1.4-5/4f57884290cc75ab22f4af9e9d4ca862/abind/DESCRIPTION | |
| - | |
| name: Set up QEMU | |
| uses: docker/setup-qemu-action@v1 | |
| - | |
| name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v1 | |
| - name: Login to DockerHub | |
| uses: docker/login-action@v1 | |
| with: | |
| Username: ${{ secrets.DOCKER_USERNAME }} | |
| password: ${{ secrets.DOCKER_PASSWORD }} | |
| - name: Generate Tags | |
| id: tags | |
| env: | |
| IMAGE_TAG_RUN: ${{ github.run_number }} | |
| IMAGE_TAG_REF: ${{ github.ref }} | |
| run: | | |
| echo "::set-output name=shashort::$(git log -1 --pretty=%h)" | |
| echo "::set-output name=reftag::${IMAGE_TAG_REF##*/}-r$IMAGE_TAG_RUN" | |
| - name: Build Push Master | |
| uses: docker/build-push-action@v2 | |
| if: contains( github.ref, 'master') || contains( github.base_ref, 'master' ) | |
| with: | |
| push: true | |
| tags: | | |
| hopkinsidd/choleramappingpipeline:latest | |
| hopkinsidd/choleramappingpipeline:latest-master | |
| hopkinsidd/choleramappingpipeline:${{steps.tags.outputs.shashort}} | |
| hopkinsidd/choleramappingpipeline:${{steps.tags.outputs.reftag}} | |
| hopkinsidd/choleramappingpipeline:${{ github.sha }} | |
| - name: Build Push Master | |
| uses: docker/build-push-action@v3 | |
| if: (contains( github.ref, 'update_docker') || contains( github.base_ref, 'update_docker' )) | |
| with: | |
| context: . | |
| push: true | |
| tags: | | |
| hopkinsidd/choleramappingpipeline:latest-dev | |
| hopkinsidd/choleramappingpipeline:${{steps.tags.outputs.shashort}} | |
| hopkinsidd/choleramappingpipeline:${{steps.tags.outputs.reftag}} | |
| hopkinsidd/choleramappingpipeline:${{ github.sha }} | |
| cache-from: type=local,src=/tmp/.buildx-cache | |
| cache-to: type=local,dest=/tmp/.buildx-cache-new,mode=max | |
| - name: Move cache | |
| run: | | |
| rm -rf /tmp/.buildx-cache | |
| rm -rf /tmp/.buildx-cache-new |