Add ECG Data Pipeline Tool #145
Workflow file for this run
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| # | |
| # This source file is part of the PAWS application based on the Stanford Spezi Template Application project | |
| # | |
| # SPDX-FileCopyrightText: 2023 Stanford University | |
| # | |
| # SPDX-License-Identifier: MIT | |
| # | |
| name: Build and Test | |
| on: | |
| pull_request: | |
| workflow_dispatch: | |
| workflow_call: | |
| jobs: | |
| reuse_action: | |
| name: REUSE Compliance Check | |
| uses: StanfordBDHG/.github/.github/workflows/reuse.yml@v2 | |
| permissions: | |
| contents: read | |
| swiftlint: | |
| name: SwiftLint | |
| uses: StanfordBDHG/.github/.github/workflows/swiftlint.yml@v2 | |
| permissions: | |
| contents: read | |
| markdownlinkcheck: | |
| name: Markdown Link Check | |
| uses: StanfordBDHG/.github/.github/workflows/markdown-link-check.yml@v2 | |
| permissions: | |
| contents: read | |
| buildandtest: | |
| name: Build and Test | |
| uses: StanfordBDHG/.github/.github/workflows/xcodebuild-or-fastlane.yml@v2 | |
| permissions: | |
| contents: read | |
| with: | |
| artifactname: PAWS.xcresult | |
| runsonlabels: '["macOS", "self-hosted"]' | |
| setupfirebaseemulator: true | |
| customcommand: "firebase emulators:exec 'fastlane test'" | |
| uploadcoveragereport: | |
| name: Upload Coverage Report | |
| needs: buildandtest | |
| uses: StanfordBDHG/.github/.github/workflows/create-and-upload-coverage-report.yml@v2 | |
| permissions: | |
| contents: read | |
| with: | |
| coveragereports: PAWS.xcresult | |
| secrets: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| buildandtestdatapipelinenotebook: | |
| name: Build and Test ECG Data pipeline Notebook | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python | |
| uses: actions/setup-python@v5 | |
| - name: Setup NodeJS | |
| uses: actions/setup-node@v3 | |
| - name: Setup Java | |
| uses: actions/setup-java@v3 | |
| with: | |
| distribution: 'microsoft' | |
| java-version: '17' | |
| - name: Setup LaTex | |
| run: | | |
| sudo apt-get install pandoc texlive-xetex texlive-fonts-recommended texlive-plain-generic | |
| - name: Cache Firebase Emulators | |
| uses: actions/cache@v3 | |
| with: | |
| path: ~/.cache/firebase/emulators | |
| key: ${{ runner.os }}-${{ runner.arch }}-firebase-emulators-${{ hashFiles('~/.cache/firebase/emulators/**') }} | |
| - name: Install Firebase CLI Tools | |
| run: npm install -g firebase-tools | |
| - name: Install Infrastructure | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install jupyterlab | |
| - name: Install ECGDataPipelineTemplate Dependencies | |
| run: | | |
| pip install pandas numpy matplotlib firebase-admin requests ipywidgets pytz | |
| - name: Set Firestore Emulator Environment Variable | |
| run: | | |
| echo "FIRESTORE_EMULATOR_HOST=localhost:8080" >> $GITHUB_ENV | |
| echo "GCLOUD_PROJECT=spezidatapipelinetemplate" >> $GITHUB_ENV | |
| - name: Run Firebase Emulator & Execute Notebook | |
| run: | | |
| firebase emulators:exec --import=./ECGDataPipelineTemplate/sample_data "jupyter nbconvert --to pdf --execute ECGDataPipelineTemplate.ipynb" | |
| env: | |
| CI: true | |
| - uses: actions/upload-artifact@v4 | |
| with: | |
| name: ECGDataPipelineTemplate.pdf | |
| path: ECGDataPipelineTemplate.pdf | |