fix: changed kraken input files for ont (#650) #321
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| name: Release | |
| on: | |
| push: | |
| branches: | |
| - master | |
| jobs: | |
| release-please: | |
| runs-on: ubuntu-latest | |
| env: | |
| GISAID_API_TOKEN: ${{ secrets.GISAID_API_TOKEN }} | |
| steps: | |
| - uses: google-github-actions/release-please-action@v4 | |
| id: release | |
| with: | |
| release-type: simple | |
| token: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Install jq | |
| run: sudo apt-get install -y jq | |
| - name: Check if PR is created | |
| id: pr_created | |
| run: | | |
| export PRNUMBER=$( echo '${{ steps.release.outputs.pr }}' | jq -r '.number' ) | |
| if [ "$PRNUMBER" -eq "$PRNUMBER" ] 2>/dev/null; then | |
| echo "::set-output name=pr::$(echo true)" | |
| echo "::set-output name=number::$(echo $PRNUMBER)" | |
| else | |
| [ -n "$PRNUMBER" ] && echo "::set-output name=pr::$(echo false)" && exit 0 | |
| echo "::set-output name=pr::$(echo false)" | |
| fi | |
| - name: PR exists debug print | |
| run: | | |
| echo ${{ steps.pr_created.outputs.pr }} | |
| - name: Release debug print | |
| run: | | |
| echo ${{ steps.release.outputs.release_created }} | |
| - name: PR If debug print | |
| run: | | |
| echo ${{ steps.pr_created.outputs.pr == 'true' }} | |
| - name: Release If debug print | |
| run: | | |
| echo ${{ steps.release.outputs.release_created == 'true' }} | |
| - name: Both debug print | |
| run: | | |
| echo ${{ steps.pr_created.outputs.pr == 'true' && steps.release.outputs.release_created != 'true' }} | |
| - name: Space | |
| run: | | |
| echo "Free space:" | |
| df -h | |
| - name: Maximize build space for container image | |
| if: ${{ steps.release.outputs.release_created == 'true' }} | |
| uses: easimon/maximize-build-space@master | |
| with: | |
| root-reserve-mb: 512 | |
| swap-size-mb: 1024 | |
| remove-dotnet: "true" | |
| remove-haskell: "true" | |
| remove-android: "true" | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Space | |
| run: | | |
| echo "Free space:" | |
| df -h | |
| - uses: actions/checkout@v4 | |
| - name: Checkout release PR locally | |
| if: ${{ steps.pr_created.outputs.pr == 'true' && steps.release.outputs.release_created != 'true' }} | |
| run: | | |
| git config user.name github-actions[bot] | |
| git config user.email github-actions[bot]@users.noreply.github.com | |
| git fetch origin | |
| git pull origin pull/${{ steps.pr_created.outputs.number }}/head | |
| - name: Export version as environment variable | |
| if: ${{ steps.pr_created.outputs.pr == 'true' || steps.release.outputs.release_created != 'true' }} | |
| run: | | |
| echo "VERSION=$(cat version.txt)" >> $GITHUB_ENV | |
| echo "Version: ${{ env.VERSION }}" | |
| echo ${{ steps.release.outputs.tag_name }} | |
| - name: Switch to release PR on origin | |
| if: ${{ steps.pr_created.outputs.pr == 'true' && steps.release.outputs.release_created != 'true' }} | |
| run: | | |
| git checkout release-please--branches--master | |
| - name: Change containerized tag | |
| if: ${{ steps.pr_created.outputs.pr == 'true' && steps.release.outputs.release_created != 'true' }} | |
| run: | | |
| sed -i "/containerized/c\containerized: \"quay.io/uncovar/uncovar#${{ env.VERSION }}\"" workflow/Snakefile | |
| - name: Push changed containerized tag | |
| if: ${{ steps.pr_created.outputs.pr == 'true' && steps.release.outputs.release_created != 'true' }} | |
| run: | | |
| git add workflow/Snakefile | |
| git commit -m "Changed containerized tag to ${{ env.VERSION }}" | |
| git push | |
| - name: Create Dockerfile | |
| if: ${{ steps.release.outputs.release_created == 'true' }} | |
| uses: snakemake/[email protected] | |
| with: | |
| directory: . | |
| snakefile: workflow/Snakefile | |
| task: "containerize" | |
| - name: Debug print | |
| run: | | |
| pwd | |
| ls -alh | |
| - name: Set up QEMU | |
| if: ${{ steps.release.outputs.release_created == 'true' }} | |
| uses: docker/setup-qemu-action@v3 | |
| - name: Set up Docker Buildx | |
| if: ${{ steps.release.outputs.release_created == 'true' }} | |
| uses: docker/setup-buildx-action@v3 | |
| - name: Login to Quay Registry | |
| if: ${{ steps.release.outputs.release_created == 'true' }} | |
| uses: docker/login-action@v3 | |
| with: | |
| registry: quay.io | |
| username: uncovar+robot | |
| password: ${{ secrets.QUAYIO_PASSWORD }} | |
| - name: Build and push | |
| if: ${{ steps.release.outputs.release_created == 'true' }} | |
| uses: docker/build-push-action@v5 | |
| with: | |
| context: . | |
| push: true | |
| tags: | | |
| quay.io/uncovar/uncovar:latest | |
| quay.io/uncovar/uncovar:${{ env.VERSION }} | |
| quay.io/uncovar/uncovar:${{ github.sha }} |