feat: Extract image orientation from NIfTI header #503
Workflow file for this run
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| --- | |
| name: Deno build | |
| on: | |
| push: | |
| branches: [main, dev] | |
| tags: ['*'] | |
| pull_request: | |
| branches: [main, dev] | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| debug_info: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - run: git status | |
| - run: git describe | |
| - run: env | |
| - name: Dump github context | |
| run: echo $GITHUB_CONTEXT | jq . | |
| env: | |
| GITHUB_CONTEXT: ${{ toJson(github) }} | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - name: Save describe stamp | |
| id: describe | |
| run: echo version=$( git describe ) >> $GITHUB_OUTPUT | |
| - uses: denoland/setup-deno@v2 | |
| with: | |
| deno-version: v2.x | |
| - run: deno --node-modules-dir=auto -A ./build.ts | |
| - run: deno run -A ./dist/validator/bids-validator.js --version | |
| - uses: actions/upload-artifact@v4 | |
| with: | |
| name: main | |
| path: dist/validator | |
| test: | |
| runs-on: ${{ matrix.os }} | |
| timeout-minutes: 5 | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest, macos-latest, windows-latest] | |
| allow-net: [true, false] | |
| fail-fast: false | |
| defaults: | |
| run: | |
| shell: bash | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| - uses: denoland/setup-deno@v2 | |
| with: | |
| deno-version: v2.x | |
| - name: Set permissions with network access | |
| run: echo 'PERMS=--allow-read --allow-write --allow-env --allow-run --allow-net' >> $GITHUB_ENV | |
| if: ${{ matrix.allow-net }} | |
| - name: Set permissions without network access | |
| run: echo 'PERMS=--allow-read --allow-write --allow-env --allow-run --deny-net' >> $GITHUB_ENV | |
| if: ${{ ! matrix.allow-net }} | |
| - name: Disable example that requires network access | |
| run: | | |
| for DS in eeg_ds003645s_hed_library xeeg_hed_score; do | |
| touch tests/data/bids-examples/${DS}/.SKIP_VALIDATION | |
| done | |
| if: ${{ ! matrix.allow-net }} | |
| - name: Disable unreleased examples | |
| run: | | |
| for DS in dwi_deriv pheno004; do | |
| touch tests/data/bids-examples/${DS}/.SKIP_VALIDATION | |
| done | |
| if: github.ref_name != 'dev' && github.base_ref != 'dev' | |
| - run: deno test --node-modules-dir=auto $PERMS --coverage=cov/ src/ | |
| - name: Collect coverage | |
| run: deno coverage cov/ --lcov --output=coverage.lcov | |
| if: ${{ always() }} | |
| - uses: codecov/codecov-action@v4 | |
| if: ${{ always() }} | |
| with: | |
| files: coverage.lcov | |
| publish-dry-run: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: denoland/setup-deno@v2 | |
| with: | |
| deno-version: v2.x | |
| - run: deno publish --dry-run | |
| publish: | |
| runs-on: ubuntu-latest | |
| needs: [test, publish-dry-run] | |
| if: github.ref_type == 'tag' | |
| permissions: | |
| contents: read | |
| id-token: write | |
| attestations: write | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Check tag matches ${{ github.ref_name }} | |
| run: jq -e ".version[:1] != \"v\" and .version==\"$TAG\"" deno.json | |
| env: | |
| TAG: ${{ github.ref_name }} | |
| - uses: denoland/setup-deno@v2 | |
| with: | |
| deno-version: v2.x | |
| - run: deno publish | |
| deploy: | |
| needs: [build] | |
| runs-on: ubuntu-latest | |
| if: github.event_name != 'pull_request' && github.repository_owner == 'bids-standard' | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| token: ${{ secrets.PUSH_TOKEN }} | |
| - name: Set credentials | |
| run: | | |
| git config --global user.name "BIDS-Bot" | |
| git config --global user.email "[email protected]" | |
| - name: Reset deno-build to orphan | |
| run: | | |
| git checkout --orphan deno-build | |
| git reset --hard | |
| - uses: actions/download-artifact@v4 | |
| with: | |
| name: main | |
| path: main | |
| - name: Commit to new branch | |
| run: | | |
| mv main/main.js main/bids-validator.js . | |
| git add main.js bids-validator.js | |
| git commit -m "BLD: $VERSION [skip ci]" || true | |
| env: | |
| VERSION: ${{ needs.build.describe.version }} | |
| - name: Push | |
| run: git push -f origin deno-build |