checking in progress of gene-search component #926
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Schematic API CI | |
| on: | |
| pull_request: | |
| branches: | |
| - main | |
| env: | |
| NX_BRANCH: ${{ github.event.number }} | |
| NX_RUN_GROUP: ${{ github.run_id }} | |
| NX_CLOUD_AUTH_TOKEN: ${{ secrets.NX_CLOUD_AUTH_TOKEN }} | |
| NX_CLOUD_ENCRYPTION_KEY: ${{ secrets.NX_CLOUD_ENCRYPTION_KEY }} | |
| NX_CLOUD_ENV_NAME: 'linux' | |
| SONAR_TOKEN: ${{ secrets.SONAR_TOKEN }} | |
| DOCKER_USERNAME: ${{ github.actor }} | |
| DOCKER_PASSWORD: ${{ secrets.GITHUB_TOKEN }} | |
| jobs: | |
| pr: | |
| runs-on: ubuntu-22.04-4core-16GBRAM-150GBSSD | |
| # Runs this job if: | |
| # 1. Triggered by a PR | |
| # 2. The PR originate from the Schematic-API-Staging branch | |
| # 3. Targets the main branch | |
| if: | | |
| github.event_name == 'pull_request' && | |
| github.event.pull_request.base.ref == 'main' && | |
| github.event.pull_request.head.ref == 'Schematic-API-Staging' | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| ref: ${{ github.event.pull_request.head.ref }} | |
| repository: ${{ github.event.pull_request.head.repo.full_name }} | |
| fetch-depth: 0 | |
| - name: Derive appropriate SHAs for base and head for `nx affected` commands | |
| uses: nrwl/nx-set-shas@v3 | |
| - name: Set up pnpm cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: '/tmp/.pnpm-store' | |
| key: ${{ runner.os }}-pnpm-store-${{ hashFiles('**/pnpm-lock.yaml') }} | |
| restore-keys: | | |
| ${{ runner.os }}-pnpm-store- | |
| - name: Set up Poetry cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: '/tmp/.cache/pypoetry' | |
| key: ${{ runner.os }}-poetry-${{ hashFiles('**/poetry.lock') }} | |
| - name: Set up venv cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: | | |
| /tmp/.local/share/virtualenv | |
| **/.venv | |
| key: ${{ runner.os }}-venv-${{ hashFiles('**/poetry.lock') }} | |
| - name: Set up Gradle cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: | | |
| /tmp/.gradle/caches | |
| /tmp/.gradle/wrapper | |
| key: ${{ runner.os }}-gradle-${{ hashFiles('**/*.gradle*', '**/gradle-wrapper.properties') }} | |
| restore-keys: | | |
| ${{ runner.os }}-gradle- | |
| - name: Install the Dev Container CLI | |
| run: npm install -g @devcontainers/[email protected] | |
| - name: Start the dev container | |
| run: | | |
| mkdir -p \ | |
| /tmp/.pnpm-store \ | |
| /tmp/.cache/R/renv/cache \ | |
| /tmp/.cache/pypoetry \ | |
| /tmp/.local/share/virtualenv \ | |
| /tmp/.gradle/caches \ | |
| /tmp/.gradle/wrapper | |
| devcontainer up \ | |
| --mount type=bind,source=/tmp/.pnpm-store,target=/workspaces/sage-monorepo/.pnpm-store \ | |
| --mount type=bind,source=/tmp/.cache/R/renv/cache,target=/home/vscode/.cache/R/renv/cache \ | |
| --mount type=bind,source=/tmp/.cache/pypoetry,target=/home/vscode/.cache/pypoetry \ | |
| --mount type=bind,source=/tmp/.local/share/virtualenv,target=/home/vscode/.local/share/virtualenv \ | |
| --mount type=bind,source=/tmp/.gradle/caches,target=/home/vscode/.gradle/caches \ | |
| --mount type=bind,source=/tmp/.gradle/wrapper,target=/home/vscode/.gradle/wrapper \ | |
| --workspace-folder ../sage-monorepo | |
| - name: Prepare the workspace | |
| run: | | |
| devcontainer exec --workspace-folder ../sage-monorepo bash -c " | |
| sudo chown -R vscode:vscode \ | |
| /workspaces/sage-monorepo \ | |
| /home/vscode/.cache \ | |
| /home/vscode/.local \ | |
| /home/vscode/.gradle \ | |
| && . ./dev-env.sh \ | |
| && workspace-install" | |
| - name: Set up synapse config | |
| run: | | |
| import yaml | |
| secrets = { | |
| "synapse_token": "${{ secrets.SCHEMATIC_SYNAPSE_TOKEN }}", | |
| "test_project": "${{ secrets.SCHEMATIC_TEST_PROJECT }}", | |
| "test_dataset": "${{ secrets.SCHEMATIC_TEST_DATASET }}", | |
| "test_manifest": "${{ secrets.SCHEMATIC_TEST_MANIFEST }}", | |
| "test_asset_view": "${{ secrets.SCHEMATIC_TEST_ASSET_VIEW }}" | |
| } | |
| for key, secret in secrets.items(): | |
| assert secret is not None | |
| assert isinstance(secret, str) | |
| assert len(secret) > 0 | |
| with open('apps/schematic/api/schematic_api/test/data/synapse_config.yaml', 'w') as file: | |
| yaml.dump(secrets, file) | |
| shell: python | |
| - name: Set up google credentials | |
| env: | |
| SERVICE_ACCOUNT_CREDS: ${{ secrets.SCHEMATIC_SERVICE_ACCT_CREDS }} | |
| run: | | |
| import json | |
| import os | |
| credentials_dict = json.loads(os.environ["SERVICE_ACCOUNT_CREDS"]) | |
| credentials_file_name = "apps/schematic/api/schematic_service_account_creds.json" | |
| with open(credentials_file_name, 'w', encoding='utf-8') as f: | |
| json.dump(credentials_dict, f, ensure_ascii=False, indent=4) | |
| shell: python | |
| - name: Test the affected projects (all) | |
| run: | | |
| devcontainer exec --workspace-folder ../sage-monorepo bash -c ". ./dev-env.sh \ | |
| && nx affected --target=test-all" | |
| - name: Remove the dev container | |
| run: docker rm -f sage_devcontainer |