Update @gmod/bam #11703
Workflow file for this run
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| name: Push | |
| on: push | |
| jobs: | |
| buildwebsite: | |
| name: Build website | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-node@v4 | |
| with: | |
| node-version: '20' | |
| - name: Install website deps (with cache) | |
| uses: bahmutov/npm-install@v1 | |
| with: | |
| working-directory: website | |
| - name: Build website | |
| run: | | |
| cd website/ | |
| yarn build | |
| mkdir testing | |
| mv build testing/jb2 | |
| - name: Check website links | |
| uses: untitaker/hyperlink@0.1.27 | |
| with: | |
| args: website/testing/ --check-anchors | |
| buildwholerepo: | |
| name: Build whole repo | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-node@v4 | |
| with: | |
| node-version: '20' | |
| - name: Install deps (with cache) | |
| uses: bahmutov/npm-install@v1 | |
| - name: Build codebase | |
| run: yarn build | |
| - name: Test build | |
| run: BUILT_TESTS=1 yarn built-test-ci | |
| - name: Test embedded lgv | |
| run: | | |
| yarn | |
| yarn build | |
| yarn test:e2e | |
| working-directory: component_tests/lgv | |
| - name: Test embedded cgv | |
| run: | | |
| yarn | |
| yarn build | |
| yarn test:e2e | |
| working-directory: component_tests/cgv | |
| - name: Test embedded react-app | |
| run: | | |
| yarn | |
| yarn build | |
| yarn test:e2e | |
| working-directory: component_tests/react-app | |
| buildjbrowseweb: | |
| name: Deploy jbrowse-web and storybooks to S3 | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-node@v4 | |
| with: | |
| node-version: '20' | |
| - name: Install deps (with cache) | |
| uses: bahmutov/npm-install@v1 | |
| - name: Build project | |
| run: | | |
| echo $RELEASE_VERSION | |
| cd products/jbrowse-web/ | |
| NODE_OPTIONS='--max-old-space-size=6500' yarn build | |
| cd ../../ | |
| - name: Configure AWS credentials | |
| uses: aws-actions/configure-aws-credentials@v4 | |
| with: | |
| aws-access-key-id: ${{ secrets.AWS_ACCESS_KEY_ID }} | |
| aws-secret-access-key: ${{ secrets.AWS_SECRET_ACCESS_KEY }} | |
| aws-region: us-east-1 | |
| - name: Copy branch build to S3 | |
| run: | | |
| cd products/jbrowse-web/build && zip -r "jbrowse-web-$(echo ${{github.ref}} | cut -d '/' -f3-).zip" . && cd - | |
| cp products/jbrowse-web/build/test_data/config.json products/jbrowse-web/build/config.json | |
| aws s3 sync --delete products/jbrowse-web/build s3://jbrowse.org/code/jb2/$(echo ${{github.ref}} | cut -d "/" -f3-) | |
| aws cloudfront create-invalidation --distribution-id E13LGELJOT4GQO --paths "/code/jb2/$(echo ${{github.ref}} | cut -d "/" -f3-)/*" | |
| - name: Build LGV | |
| run: | | |
| yarn storybook:build | |
| working-directory: products/jbrowse-react-linear-genome-view | |
| - name: Configure AWS credentials | |
| uses: aws-actions/configure-aws-credentials@v4 | |
| with: | |
| aws-access-key-id: ${{ secrets.AWS_ACCESS_KEY_ID }} | |
| aws-secret-access-key: ${{ secrets.AWS_SECRET_ACCESS_KEY }} | |
| aws-region: us-east-1 | |
| - name: Deploy LGV | |
| run: | | |
| pwd | |
| aws s3 sync --delete storybook-static s3://jbrowse.org/storybook/lgv/$(echo ${{github.ref}} | cut -d "/" -f3-) | |
| aws cloudfront create-invalidation --distribution-id E13LGELJOT4GQO --paths "/storybook/lgv/$(echo ${{github.ref}} | cut -d "/" -f3-)/*" | |
| working-directory: products/jbrowse-react-linear-genome-view | |
| - name: Build React App | |
| run: | | |
| yarn storybook:build | |
| working-directory: products/jbrowse-react-app | |
| - name: Configure AWS credentials | |
| uses: aws-actions/configure-aws-credentials@v4 | |
| with: | |
| aws-access-key-id: ${{ secrets.AWS_ACCESS_KEY_ID }} | |
| aws-secret-access-key: ${{ secrets.AWS_SECRET_ACCESS_KEY }} | |
| aws-region: us-east-1 | |
| - name: Deploy React App | |
| run: | | |
| pwd | |
| aws s3 sync --delete storybook-static s3://jbrowse.org/storybook/app/$(echo ${{github.ref}} | cut -d "/" -f3-) | |
| aws cloudfront create-invalidation --distribution-id E13LGELJOT4GQO --paths "/storybook/app/$(echo ${{github.ref}} | cut -d "/" -f3-)/*" | |
| working-directory: products/jbrowse-react-app | |
| - name: Build CGV | |
| run: | | |
| yarn storybook:build | |
| working-directory: products/jbrowse-react-circular-genome-view | |
| - name: Configure AWS credentials | |
| uses: aws-actions/configure-aws-credentials@v4 | |
| with: | |
| aws-access-key-id: ${{ secrets.AWS_ACCESS_KEY_ID }} | |
| aws-secret-access-key: ${{ secrets.AWS_SECRET_ACCESS_KEY }} | |
| aws-region: us-east-1 | |
| - name: Deploy CGV | |
| run: | | |
| pwd | |
| aws s3 sync --delete storybook-static s3://jbrowse.org/storybook/cgv/$(echo ${{github.ref}} | cut -d "/" -f3-) | |
| aws cloudfront create-invalidation --distribution-id E13LGELJOT4GQO --paths "/storybook/cgv/$(echo ${{github.ref}} | cut -d "/" -f3-)/*" | |
| working-directory: products/jbrowse-react-circular-genome-view | |
| formatchecks: | |
| name: Lint, typecheck, test | |
| runs-on: ubuntu-latest | |
| steps: | |
| - run: sudo apt-get -y install tabix | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-node@v4 | |
| with: | |
| node-version: '20' | |
| - name: Install deps and build (with cache) | |
| uses: bahmutov/npm-install@v1 | |
| - name: Check codebase format | |
| run: yarn prettier --check . | |
| - name: Check autogen docs | |
| run: yarn statedocs && yarn configdocs | |
| - name: Spellcheck | |
| uses: crate-ci/typos@master | |
| - name: Lint codebase | |
| run: yarn lint | |
| - name: Test codebase | |
| run: yarn test-ci | |
| - name: Upload coverage | |
| uses: codecov/codecov-action@v4 | |
| - name: Typecheck codebase | |
| run: yarn typecheck |