Merge pull request #101 from nextstrain/pathogen-repo-build-grab-bag #524
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: CI | |
| on: | |
| push: | |
| branches: | |
| - master | |
| pull_request: | |
| workflow_dispatch: | |
| jobs: | |
| test-setup-nextstrain-cli: | |
| name: test-setup-nextstrain-cli (os=${{ matrix.os }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: | |
| - ubuntu-latest | |
| - macos-latest | |
| - windows-latest | |
| runs-on: ${{ matrix.os }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./actions/setup-nextstrain-cli | |
| - run: nextstrain version --verbose | |
| test-pathogen-repo-ci: | |
| uses: ./.github/workflows/pathogen-repo-ci.yaml | |
| with: | |
| repo: nextstrain/zika | |
| artifact-name: outputs-test-pathogen-repo-ci | |
| secrets: inherit | |
| test-docs-ci-conda: | |
| uses: ./.github/workflows/docs-ci.yaml | |
| with: | |
| repo: nextstrain/docs.nextstrain.org | |
| docs-directory: . | |
| environment-file: conda.yml | |
| test-docs-ci-pip: | |
| uses: ./.github/workflows/docs-ci.yaml | |
| with: | |
| repo: nextstrain/augur | |
| docs-directory: docs/ | |
| pip-install-target: .[dev] | |
| test-pathogen-repo-build: | |
| permissions: | |
| id-token: write | |
| strategy: | |
| matrix: | |
| runtime: [docker, conda] | |
| uses: ./.github/workflows/pathogen-repo-build.yaml | |
| with: | |
| repo: nextstrain/zika-tutorial | |
| runtime: ${{ matrix.runtime }} | |
| run: nextstrain build --env BOGUS_ENVVAR . | |
| artifact-name: build-output-${{ matrix.runtime }} | |
| env: | | |
| BOGUS_ENVVAR: BOGUS_ENVVAR | |
| secrets: inherit | |
| # This job has to be separate from the matrix above because we want | |
| # to check the aws-batch-job-id output from the workflow but matrix outputs | |
| # currently will overwrite each other. | |
| # See <https://github.com/orgs/community/discussions/26639> | |
| test-pathogen-repo-build-aws-batch: | |
| permissions: | |
| id-token: write | |
| uses: ./.github/workflows/pathogen-repo-build.yaml | |
| with: | |
| repo: nextstrain/zika-tutorial | |
| runtime: aws-batch | |
| run: nextstrain build --env BOGUS_ENVVAR . | |
| artifact-name: build-output-aws-batch | |
| env: | | |
| BOGUS_ENVVAR: BOGUS_ENVVAR | |
| secrets: inherit | |
| test-pathogen-repo-build-aws-batch-id-output: | |
| needs: [test-pathogen-repo-build-aws-batch] | |
| permissions: | |
| id-token: write | |
| uses: ./.github/workflows/pathogen-repo-build.yaml | |
| with: | |
| repo: nextstrain/zika-tutorial | |
| runtime: aws-batch | |
| run: nextstrain build --attach "$AWS_BATCH_JOB_ID" . | |
| artifact-name: build-output-aws-batch-reattached | |
| env: | | |
| AWS_BATCH_JOB_ID: ${{ needs.test-pathogen-repo-build-aws-batch.outputs.aws-batch-job-id }} | |
| secrets: inherit | |
| lint: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - run: make check | |
| - run: ./devel/check-readme | |
| - uses: ./actions/shellcheck |