option to use torch.compile (#336) #4
Workflow file for this run
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| name: Build and publish containers | |
| on: | |
| push: | |
| tags: | |
| - 'v*' | |
| jobs: | |
| build_docker: | |
| name: Docker image | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out the repo | |
| uses: actions/checkout@v2 | |
| - name: Login to quay.io | |
| uses: docker/login-action@v1 | |
| with: | |
| registry: quay.io | |
| username: ${{ secrets.QUAYIO_USERNAME }} | |
| password: ${{ secrets.QUAYIO_TOKEN }} | |
| - name: Set output variables | |
| id: vars | |
| run: | | |
| echo "::set-output name=tag::${GITHUB_REF#refs/*/}" | |
| echo "::set-output name=date::$(date +'%Y-%m-%d')" | |
| echo "::set-output name=repo_url::${GITHUB_SERVER_URL}/${GITHUB_REPOSITORY}" | |
| - name: Build and push Docker image | |
| uses: docker/build-push-action@v2 | |
| with: | |
| context: . | |
| push: true | |
| tags: quay.io/vitkl/cell2location:${{ steps.vars.outputs.tag }} | |
| labels: | | |
| title=cell2location | |
| description=High-throughput spatial mapping of cell types | |
| maintainer=Vitalii Kleshchevnikov <[email protected]> | |
| version=${{ steps.vars.outputs.tag }} | |
| created=${{ steps.vars.outputs.date }} | |
| url=${{ steps.vars.outputs.repo_url }} | |
| licenses=Apache License 2.0 | |
| build_singularity: | |
| name: Singularity image file | |
| runs-on: ubuntu-latest | |
| needs: build_docker | |
| steps: | |
| - name: Setup singularity | |
| uses: eWaterCycle/setup-singularity@v6 | |
| with: | |
| singularity-version: 3.6.4 | |
| - name: Set output variables | |
| id: vars | |
| run: | | |
| echo "::set-output name=tag::${GITHUB_REF#refs/*/}" | |
| - name: Build singularity container | |
| run: | | |
| singularity build cell2location-${{ steps.vars.outputs.tag }}.sif docker://quay.io/vitkl/cell2location:${{ steps.vars.outputs.tag }} | |
| - name: Upload container to S3 | |
| env: | |
| AWS_ACCESS_KEY_ID: ${{ secrets.AWS_ACCESS_KEY_ID }} | |
| AWS_SECRET_ACCESS_KEY: ${{ secrets.AWS_SECRET_ACCESS_KEY }} | |
| AWS_DEFAULT_REGION: other-v2-signature | |
| run: | | |
| aws s3 cp cell2location-${{ steps.vars.outputs.tag }}.sif s3://cell2location/singularity/ --endpoint-url ${{ secrets.AWS_S3_ENDPOINT }} --acl public-read |