feat(plots): plot inferred time-clonal fate potency correlation #1091
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| name: CID | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - beta | |
| paths-ignore: | |
| - ".github/workflows/colab.yml" | |
| - ".github/workflows/manuscript.yaml" | |
| - "conda/**" | |
| - "dev/**" | |
| - "docs/**" | |
| - "reproducibility/**" | |
| - "scripts/**" | |
| - "**.md" | |
| - "*" | |
| - "!pyproject.toml" | |
| - "!poetry.lock" | |
| - "!flake.nix" | |
| - "!flake.lock" | |
| pull_request: | |
| types: [opened, synchronize, labeled, reopened] | |
| paths-ignore: | |
| - ".github/workflows/colab.yml" | |
| - ".github/workflows/manuscript.yaml" | |
| - "conda/**" | |
| - "dev/**" | |
| - "docs/**" | |
| - "reproducibility/**" | |
| - "scripts/**" | |
| - "**.md" | |
| - "*" | |
| - "!pyproject.toml" | |
| - "!poetry.lock" | |
| - "!flake.nix" | |
| - "!flake.lock" | |
| workflow_dispatch: | |
| inputs: | |
| debug_enabled: | |
| description: "Run with tmate.io debugging enabled" | |
| required: true | |
| type: boolean | |
| default: false | |
| run_build_images: | |
| description: "Run build-images job" | |
| required: false | |
| type: boolean | |
| default: false | |
| run_execute_workflow: | |
| description: "Run execute-workflow job" | |
| required: false | |
| type: boolean | |
| default: false | |
| workflow_execution_mode: | |
| description: "Workflow execution mode" | |
| required: false | |
| type: string | |
| default: "prod" | |
| defaults: | |
| run: | |
| shell: bash | |
| permissions: | |
| contents: read | |
| packages: write | |
| attestations: write | |
| actions: write | |
| id-token: write | |
| jobs: | |
| set-variables: | |
| runs-on: ubuntu-latest | |
| outputs: | |
| debug: ${{ steps.set-variables.outputs.debug }} | |
| skip_ci: ${{ steps.set-variables.outputs.skip_ci }} | |
| skip_tests: ${{ steps.set-variables.outputs.skip_tests }} | |
| mode: ${{ steps.set-variables.outputs.mode }} | |
| checkout_ref: ${{ steps.set-variables.outputs.checkout_ref }} | |
| checkout_rev: ${{ steps.set-variables.outputs.checkout_rev }} | |
| steps: | |
| - name: Set action variables | |
| id: set-variables | |
| run: | | |
| DEBUG="false" | |
| MODE="prod" | |
| SKIP_CI="false" | |
| SKIP_TESTS="false" | |
| if [[ "${{ github.event_name }}" == "workflow_dispatch" ]]; then | |
| DEBUG="${{ inputs.debug_enabled }}" | |
| MODE="${{ inputs.workflow_execution_mode }}" | |
| fi | |
| if [[ "${{ github.event_name }}" == "pull_request" ]]; then | |
| if ${{ contains(github.event.pull_request.labels.*.name, 'skip-ci') }}; then | |
| SKIP_CI="true" | |
| fi | |
| if ${{ contains(github.event.pull_request.labels.*.name, 'skip-tests') }}; then | |
| SKIP_TESTS="true" | |
| fi | |
| if ${{ contains(github.event.pull_request.labels.*.name, 'actions-debug') }}; then | |
| DEBUG="true" | |
| fi | |
| if ${{ contains(github.event.pull_request.labels.*.name, 'dev-mode') }}; then | |
| MODE="dev" | |
| fi | |
| CHECKOUT_REF="${{ github.event.pull_request.head.ref }}" | |
| CHECKOUT_REV="${{ github.event.pull_request.head.sha }}" | |
| else | |
| CHECKOUT_REF="${{ github.ref_name }}" | |
| CHECKOUT_REV="${{ github.sha }}" | |
| fi | |
| echo "DEBUG=$DEBUG" | |
| echo "MODE=$MODE" | |
| echo "SKIP_CI=$SKIP_CI" | |
| echo "SKIP_TESTS=$SKIP_TESTS" | |
| echo "CHECKOUT_REF=$CHECKOUT_REF" | |
| echo "CHECKOUT_REV=$CHECKOUT_REV" | |
| echo "DEBUG=$DEBUG" >> $GITHUB_OUTPUT | |
| echo "MODE=$MODE" >> $GITHUB_OUTPUT | |
| echo "SKIP_CI=$SKIP_CI" >> $GITHUB_OUTPUT | |
| echo "SKIP_TESTS=$SKIP_TESTS" >> $GITHUB_OUTPUT | |
| echo "CHECKOUT_REF=$CHECKOUT_REF" >> $GITHUB_OUTPUT | |
| echo "CHECKOUT_REV=$CHECKOUT_REV" >> $GITHUB_OUTPUT | |
| config-workflows: | |
| needs: [set-variables] | |
| if: ${{ needs.set-variables.outputs.skip_ci != 'true' }} | |
| runs-on: ubuntu-latest | |
| outputs: | |
| config-path: ${{ steps.config-output.outputs.path }} | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@692973e3d937129bcbf40652eb9f2f61becf3332 # v4 | |
| with: | |
| ref: ${{ needs.set-variables.outputs.checkout_ref }} | |
| - name: Create Flyte config from YAML template | |
| id: yq-process | |
| uses: mikefarah/yq@ef6fb92e7f314e7f0ef49da4385458271203119a # ratchet:mikefarah/yq@master | |
| with: | |
| cmd: "yq e \ | |
| '.admin.endpoint = strenv(FLYTE_CLUSTER_ENDPOINT) | \ | |
| .storage.stow.config.project_id = strenv(GCP_PROJECT_ID) | \ | |
| .storage.stow.config.scopes = strenv(GCP_STORAGE_SCOPES) | \ | |
| .storage.container = strenv(GCP_STORAGE_CONTAINER)' \ | |
| .flyte/config-template.yaml > .flyte/config.yaml" | |
| env: | |
| FLYTE_CLUSTER_ENDPOINT: ${{ secrets.FLYTE_CLUSTER_ENDPOINT }} | |
| GCP_PROJECT_ID: ${{ secrets.GCP_PROJECT_ID }} | |
| GCP_STORAGE_SCOPES: ${{ secrets.GCP_STORAGE_SCOPES }} | |
| GCP_STORAGE_CONTAINER: ${{ secrets.GCP_STORAGE_CONTAINER }} | |
| - name: Upload Flyte config as an artifact | |
| id: config-output | |
| uses: actions/upload-artifact@0b2256b8c012f0828dc542b3febcab082c67f72b # v4 | |
| with: | |
| name: flyte-config | |
| path: ${{ secrets.FLYTECTL_CONFIG }} | |
| test-python: | |
| runs-on: ubuntu-latest | |
| needs: [set-variables, config-workflows] | |
| if: ${{ needs.set-variables.outputs.skip_ci != 'true' && needs.set-variables.outputs.skip_tests != 'true' }} | |
| concurrency: | |
| group: test-python-${{ matrix.python_version }}-${{ github.workflow }}-${{ github.event_name == 'pull_request' && github.event.pull_request.number || github.ref_name }}-${{ needs.set-variables.outputs.mode }} | |
| cancel-in-progress: true | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| include: | |
| - python_version: "3.11" | |
| continue-on-error: false | |
| - python_version: "3.12" | |
| continue-on-error: true | |
| steps: | |
| - name: Check Variables | |
| run: | | |
| echo "SKIP_CI=${{ needs.set-variables.outputs.skip_ci }}" | |
| echo "SKIP_TESTS=${{ needs.set-variables.outputs.skip_tests }}" | |
| echo "DEBUG=${{ needs.set-variables.outputs.debug }}" | |
| echo "MODE=${{ needs.set-variables.outputs.mode }}" | |
| - name: Checkout code | |
| uses: actions/checkout@692973e3d937129bcbf40652eb9f2f61becf3332 # v4 | |
| with: | |
| ref: ${{ needs.set-variables.outputs.checkout_ref }} | |
| - name: Setup environment | |
| uses: ./.github/actions/setup_environment | |
| with: | |
| python_version: ${{ matrix.python_version }} | |
| debug_enabled: ${{ needs.set-variables.outputs.debug }} | |
| continue-on-error: ${{ matrix.continue-on-error }} | |
| - name: Download Flyte config | |
| uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
| with: | |
| name: flyte-config | |
| path: .flyte/ | |
| continue-on-error: ${{ matrix.continue-on-error }} | |
| - name: "Setup tmate debug session" | |
| uses: mxschmitt/action-tmate@a283f9441d2d96eb62436dc46d7014f5d357ac22 # ratchet:mxschmitt/action-tmate@v3 | |
| if: ${{ inputs.debug_enabled }} | |
| - name: Lint and typecheck | |
| run: | | |
| make lint-check | |
| continue-on-error: ${{ matrix.continue-on-error }} | |
| - name: Run tests | |
| run: | | |
| make test-cov-xml | |
| continue-on-error: ${{ matrix.continue-on-error }} | |
| - name: Upload coverage | |
| uses: codecov/codecov-action@e28ff129e5465c2c0dcc6f003fc735cb6ae0c673 # v4 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| fail_ci_if_error: false | |
| verbose: true | |
| continue-on-error: ${{ matrix.continue-on-error }} | |
| test-bazel: | |
| runs-on: ubuntu-latest | |
| needs: [set-variables, config-workflows] | |
| if: ${{ needs.set-variables.outputs.skip_ci != 'true' && needs.set-variables.outputs.skip_tests != 'true' }} | |
| concurrency: | |
| group: test-bazel-${{ github.workflow }}-${{ github.event_name == 'pull_request' && github.event.pull_request.number || github.ref_name }}-${{ needs.set-variables.outputs.mode }} | |
| cancel-in-progress: true | |
| permissions: | |
| contents: read | |
| steps: | |
| - uses: actions/checkout@692973e3d937129bcbf40652eb9f2f61becf3332 # v4 | |
| with: | |
| ref: ${{ needs.set-variables.outputs.checkout_ref }} | |
| - name: setup gcp credentials | |
| run: | | |
| cat > service-account-credentials.json << EOF | |
| ${{ secrets.GOOGLE_APPLICATION_CREDENTIALS_DATA }} | |
| EOF | |
| - name: cache bazel | |
| uses: actions/cache@0c45773b623bea8c8e75f6c82b208c3cf94ea4f9 # ratchet:actions/cache@v4 | |
| with: | |
| path: | | |
| ~/.cache/bazel | |
| key: ${{ runner.os }}-bazel-${{ hashFiles('.bazelversion', '.bazelrc', 'MODULE.bazel') }} | |
| restore-keys: | | |
| ${{ runner.os }}-bazel- | |
| - name: cache requirements | |
| id: cache-requirements | |
| uses: actions/cache@0c45773b623bea8c8e75f6c82b208c3cf94ea4f9 # ratchet:actions/cache@v4 | |
| with: | |
| path: | | |
| requirements-bazel.txt | |
| key: ${{ runner.os }}-requirements-${{ hashFiles('requirements-cpu.txt', 'MODULE.bazel') }} | |
| restore-keys: | | |
| ${{ runner.os }}-requirements- | |
| - name: update linux requirements | |
| if: ${{ steps.cache-requirements.outputs.cache-hit != 'true' }} | |
| run: | | |
| make lock-bazel | |
| - name: run bazel tests | |
| run: | | |
| df -h | |
| make meta-bazel test-bazel | |
| df -h | |
| - name: upload requirements artifact | |
| uses: actions/upload-artifact@0b2256b8c012f0828dc542b3febcab082c67f72b # v4 | |
| with: | |
| name: requirements-bazel | |
| path: requirements-bazel.txt | |
| test-nix: | |
| runs-on: ubuntu-latest | |
| # runs-on: pinellolab-runners | |
| needs: [set-variables, config-workflows] | |
| if: ${{ needs.set-variables.outputs.skip_ci != 'true' && needs.set-variables.outputs.skip_tests != 'true' }} | |
| concurrency: | |
| group: test-nix-${{ github.workflow }}-${{ github.event_name == 'pull_request' && github.event.pull_request.number || github.ref_name }}-${{ needs.set-variables.outputs.mode }} | |
| cancel-in-progress: true | |
| permissions: | |
| contents: read | |
| steps: | |
| - name: Maximize build space | |
| # uses: easimon/maximize-build-space@fc881a613ad2a34aca9c9624518214ebc21dfc0c # ratchet:easimon/maximize-build-space@v10 | |
| uses: cameronraysmith/maximize-build-space@fdf0c06b18d92be98aa64cb68ae4ea4c9bc4794d # ratchet:cameronraysmith/maximize-build-space@print-usage | |
| with: | |
| build-mount-path: /nix | |
| build-mount-path-ownership: root:root | |
| root-reserve-mb: 34816 | |
| swap-size-mb: 1024 | |
| remove-dotnet: "true" | |
| remove-android: "true" | |
| remove-codeql: "true" | |
| remove-docker-images: "true" | |
| - uses: actions/checkout@692973e3d937129bcbf40652eb9f2f61becf3332 # v4 | |
| with: | |
| ref: ${{ needs.set-variables.outputs.checkout_ref }} | |
| - uses: DeterminateSystems/nix-installer-action@7993355175c2765e5733dae74f3e0786fe0e5c4f # ratchet:DeterminateSystems/nix-installer-action@v12 | |
| # - uses: DeterminateSystems/magic-nix-cache-action@b46e247b898aa56e6d2d2e728dc6df6c84fdb738 # ratchet:DeterminateSystems/magic-nix-cache-action@v7 | |
| # # Toggling use-gha-cache can help resolve `Nix daemon disconnected unexpectedly`. | |
| # with: | |
| # use-gha-cache: false | |
| - uses: cachix/cachix-action@ad2ddac53f961de1989924296a1f236fcfbaa4fc # ratchet:cachix/cachix-action@v15 | |
| with: | |
| name: "${{ vars.CACHIX_CACHE_NAME }}" | |
| authToken: "${{ secrets.CACHIX_AUTH_TOKEN }}" | |
| # - name: "Authenticate to Google Cloud" | |
| # uses: "google-github-actions/auth@55bd3a7c6e2ae7cf1877fd1ccb9d54c0503c457c" # ratchet:google-github-actions/auth@v2 | |
| # with: | |
| # credentials_json: "${{ secrets.GOOGLE_APPLICATION_CREDENTIALS_DATA }}" | |
| # - name: Set up remote cache | |
| # uses: zombiezen/setup-nix-cache-action@78efa9db5802d6a141bc42681edf000bf7f31a08 # ratchet:zombiezen/setup-nix-cache-action@v0 | |
| # with: | |
| # substituters: "${{ vars.NIX_SUBSTITUTER }}" | |
| # secret_keys: "${{ secrets.NIX_PRIVATE_KEY }}" | |
| # use_nixcached: true | |
| # nixcached_upload_options: --jobs 8 | |
| - uses: rlespinasse/github-slug-action@797d68864753cbceedc271349d402da4590e6302 # ratchet:rlespinasse/github-slug-action@v4 | |
| with: | |
| prefix: CI_ | |
| - name: Set git variables | |
| run: | | |
| echo "GIT_REPO_NAME=$CI_GITHUB_REPOSITORY_NAME_PART" >> $GITHUB_ENV | |
| echo "GIT_REF=$CI_GITHUB_REF_NAME" >> $GITHUB_ENV | |
| if [ "${{ github.event_name }}" == "pull_request" ]; then | |
| echo "GIT_SHA=$CI_GITHUB_EVENT_PULL_REQUEST_HEAD_SHA" >> $GITHUB_ENV | |
| echo "GIT_SHA_SHORT=$CI_GITHUB_EVENT_PULL_REQUEST_HEAD_SHA_SHORT" >> $GITHUB_ENV | |
| else | |
| echo "GIT_SHA=$CI_GITHUB_SHA" >> $GITHUB_ENV | |
| echo "GIT_SHA_SHORT=$CI_GITHUB_SHA_SHORT" >> $GITHUB_ENV | |
| fi | |
| - name: Check nix flake | |
| run: nix flake check --impure --accept-flake-config | |
| # ./scripts/flake can be used to enable the flake for testing | |
| # - run: | | |
| # ./scripts/flake pytest | |
| - name: Test nix package | |
| run: | | |
| set -euo pipefail | |
| df -h | |
| nix build .#default \ | |
| --accept-flake-config \ | |
| --impure \ | |
| --fallback \ | |
| --keep-going \ | |
| --print-build-logs | |
| df -h | |
| build-nix-images: | |
| needs: [set-variables] | |
| if: ${{ needs.set-variables.outputs.skip_ci != 'true' && ( contains(github.event.pull_request.labels.*.name, 'build-images') || contains(github.event.pull_request.labels.*.name, 'execute-workflow') || (github.event_name == 'workflow_dispatch' && inputs.run_build_images) || (github.event_name == 'workflow_dispatch' && inputs.run_execute_workflow) ) }} | |
| uses: ./.github/workflows/build-nix-images.yaml | |
| concurrency: | |
| group: bni-${{ github.workflow }}-${{ github.event_name == 'pull_request' && github.event.pull_request.number || github.ref_name }}-${{ needs.set-variables.outputs.mode }}-${{ github.sha }} | |
| cancel-in-progress: true | |
| with: | |
| debug_enabled: ${{ needs.set-variables.outputs.debug }} | |
| version: "" | |
| images: '["pyrovelocity"]' | |
| branch: ${{ needs.set-variables.outputs.checkout_ref }} | |
| revision: ${{ needs.set-variables.outputs.checkout_rev }} | |
| mode: ${{ needs.set-variables.outputs.mode }} | |
| execute-workflow: | |
| needs: [config-workflows, build-nix-images, set-variables] | |
| if: ${{ needs.set-variables.outputs.skip_ci != 'true' && (contains(github.event.pull_request.labels.*.name, 'execute-workflow') || (github.event_name == 'workflow_dispatch' && inputs.run_execute_workflow)) }} | |
| runs-on: ubuntu-latest | |
| concurrency: | |
| group: ef-${{ github.workflow }}-${{ github.event_name == 'pull_request' && github.event.pull_request.number || github.ref_name }}-${{ needs.set-variables.outputs.mode }}-${{ github.sha }} | |
| cancel-in-progress: true | |
| strategy: | |
| matrix: | |
| python_version: ["3.11"] | |
| env: | |
| FLYTECTL_CONFIG: ${{ secrets.FLYTECTL_CONFIG }} | |
| FLYTE_OAUTH_CLIENT_SECRET: ${{ secrets.FLYTE_OAUTH_CLIENT_SECRET }} | |
| WORKFLOW_IMAGE: ${{ vars.WORKFLOW_IMAGE }} | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@692973e3d937129bcbf40652eb9f2f61becf3332 # v4 | |
| with: | |
| ref: ${{ needs.set-variables.outputs.checkout_ref }} | |
| - name: Setup environment | |
| uses: ./.github/actions/setup_environment | |
| with: | |
| python_version: ${{ matrix.python_version }} | |
| debug_enabled: ${{ needs.set-variables.outputs.debug }} | |
| - name: Download Flyte config | |
| uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
| with: | |
| name: flyte-config | |
| path: .flyte/ | |
| - name: Setup tmate debug session | |
| if: ${{ inputs.debug_enabled == 'true' }} | |
| uses: mxschmitt/action-tmate@a283f9441d2d96eb62436dc46d7014f5d357ac22 # ratchet:mxschmitt/action-tmate@v3 | |
| - name: Execute workflow | |
| id: execute | |
| run: | | |
| make run-${{ needs.set-variables.outputs.mode }} | |
| - name: Create config tarball | |
| id: save-hydra-outputs | |
| run: | | |
| TAR_FILENAME="hydra_outputs_${{ needs.set-variables.outputs.checkout_rev }}.tar.gz" | |
| tar -czf $TAR_FILENAME ./outputs/ | |
| tar -tzf $TAR_FILENAME | |
| echo "HYDRA_OUTPUTS_TAR=$TAR_FILENAME" >> $GITHUB_ENV | |
| - name: Upload config artifact | |
| uses: actions/upload-artifact@0b2256b8c012f0828dc542b3febcab082c67f72b # v4 | |
| with: | |
| name: hydra-outputs | |
| path: ${{ env.HYDRA_OUTPUTS_TAR }} | |
| release: | |
| runs-on: ubuntu-latest | |
| needs: [test-python, test-nix, test-bazel] | |
| if: ${{ github.repository_owner == 'pinellolab' && github.event_name == 'push' }} | |
| environment: | |
| name: release | |
| url: https://github.com/pinellolab/pyrovelocity/releases/tag/${{ steps.semanticrelease.outputs.git-tag }} | |
| permissions: | |
| contents: write | |
| outputs: | |
| version: ${{ steps.semanticrelease.outputs.version }} | |
| released: ${{ steps.semanticrelease.outputs.released }} | |
| git-head: ${{ steps.semanticrelease.outputs.git-head }} | |
| git-tag: ${{ steps.semanticrelease.outputs.git-tag }} | |
| steps: | |
| - uses: actions/checkout@692973e3d937129bcbf40652eb9f2f61becf3332 # v4 | |
| with: | |
| ref: ${{ needs.set-variables.outputs.checkout_ref }} | |
| - uses: DeterminateSystems/nix-installer-action@7993355175c2765e5733dae74f3e0786fe0e5c4f # ratchet:DeterminateSystems/nix-installer-action@v12 | |
| # - uses: DeterminateSystems/magic-nix-cache-action@b46e247b898aa56e6d2d2e728dc6df6c84fdb738 # ratchet:DeterminateSystems/magic-nix-cache-action@v7 | |
| - uses: cachix/cachix-action@ad2ddac53f961de1989924296a1f236fcfbaa4fc # ratchet:cachix/cachix-action@v15 | |
| with: | |
| name: "${{ vars.CACHIX_CACHE_NAME }}" | |
| authToken: "${{ secrets.CACHIX_AUTH_TOKEN }}" | |
| # - uses: "google-github-actions/auth@55bd3a7c6e2ae7cf1877fd1ccb9d54c0503c457c" # ratchet:google-github-actions/auth@v2 | |
| # with: | |
| # credentials_json: "${{ secrets.GOOGLE_APPLICATION_CREDENTIALS_DATA }}" | |
| # - uses: zombiezen/setup-nix-cache-action@78efa9db5802d6a141bc42681edf000bf7f31a08 # ratchet:zombiezen/setup-nix-cache-action@v0 | |
| # with: | |
| # substituters: "${{ vars.NIX_SUBSTITUTER }}" | |
| # secret_keys: "${{ secrets.NIX_PRIVATE_KEY }}" | |
| # use_nixcached: true | |
| # nixcached_upload_options: --jobs 8 | |
| - run: nix profile install .#releaseEnv | |
| - uses: cihelper/action-semanticrelease-poetry@66900ba780321bcdb974891ee82f945a25a870d7 # ratchet:cihelper/action-semanticrelease-poetry@v1 | |
| id: semanticrelease | |
| with: | |
| github-token: ${{ secrets.FAST_FORWARD_PAT }} | |
| - uses: actions/upload-artifact@0b2256b8c012f0828dc542b3febcab082c67f72b # v4 | |
| if: ${{ steps.semanticrelease.outputs.released == 'true' }} | |
| with: | |
| name: poetry-build | |
| path: ./dist | |
| publish-nix-flake: | |
| runs-on: ubuntu-latest | |
| needs: [set-variables, release] | |
| if: ${{ needs.release.outputs.released == 'true' }} | |
| permissions: | |
| id-token: write | |
| contents: read | |
| steps: | |
| - uses: actions/checkout@692973e3d937129bcbf40652eb9f2f61becf3332 # v4 | |
| with: | |
| ref: ${{ needs.release.outputs.git-tag }} | |
| - uses: DeterminateSystems/nix-installer-action@7993355175c2765e5733dae74f3e0786fe0e5c4f # ratchet:DeterminateSystems/nix-installer-action@v12 | |
| - uses: DeterminateSystems/flakehub-push@d3b4b64eb6ff61361ac7a7ac146eb443c86921a2 # ratchet:DeterminateSystems/flakehub-push@main | |
| with: | |
| visibility: unlisted | |
| tag: ${{ needs.release.outputs.version }} | |
| publish-release-images: | |
| needs: [set-variables, release] | |
| if: ${{ needs.release.outputs.released == 'true' }} | |
| uses: ./.github/workflows/build-nix-images.yaml | |
| concurrency: | |
| group: pri-${{ github.workflow }}-${{ github.ref_name }}-${{ github.sha }} | |
| cancel-in-progress: true | |
| with: | |
| debug_enabled: ${{ needs.set-variables.outputs.debug }} | |
| version: ${{ needs.release.outputs.version }} | |
| images: '["pyrovelocity","pyrovelocitydev","pyrovelocitycode","pyrovelocityjupyter"]' | |
| branch: ${{ needs.set-variables.outputs.checkout_ref }} | |
| revision: ${{ needs.release.outputs.git-head }} | |
| mode: "prod" | |
| publish-pypi: | |
| runs-on: ubuntu-latest | |
| needs: release | |
| if: ${{ needs.release.outputs.released == 'true' }} | |
| permissions: | |
| id-token: write | |
| environment: | |
| name: release | |
| url: https://pypi.org/project/pyrovelocity/${{needs.release.outputs.version}}/ | |
| steps: | |
| - uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4 | |
| with: | |
| name: poetry-build | |
| path: ./dist | |
| - uses: pypa/gh-action-pypi-publish@fb9fc6a4e67ca27a7a76b17bbf90be83c2d3c716 # ratchet:pypa/gh-action-pypi-publish@release/v1 | |
| test-docs-build: | |
| runs-on: ubuntu-latest | |
| needs: set-variables | |
| if: ${{ needs.set-variables.outputs.skip_ci != 'true' && needs.set-variables.outputs.skip_tests != 'true' }} | |
| strategy: | |
| matrix: | |
| python_version: ["3.11"] | |
| permissions: | |
| contents: read | |
| pages: read | |
| steps: | |
| - uses: actions/checkout@692973e3d937129bcbf40652eb9f2f61becf3332 # v4 | |
| with: | |
| ref: ${{ needs.set-variables.outputs.checkout_ref }} | |
| - name: Setup environment | |
| uses: ./.github/actions/setup_environment | |
| with: | |
| python_version: ${{ matrix.python_version }} | |
| debug_enabled: ${{ needs.set-variables.outputs.debug }} | |
| - name: Build | |
| run: make docs-build | |
| build-release-docs: | |
| runs-on: ubuntu-latest | |
| needs: [set-variables, release] | |
| if: ${{ needs.release.outputs.released == 'true' }} | |
| strategy: | |
| matrix: | |
| python_version: ["3.11"] | |
| permissions: | |
| contents: read | |
| pages: read | |
| environment: github-pages | |
| steps: | |
| - uses: actions/checkout@692973e3d937129bcbf40652eb9f2f61becf3332 # v4 | |
| with: | |
| ref: ${{ needs.release.outputs.git-tag }} | |
| - name: Setup environment | |
| uses: ./.github/actions/setup_environment | |
| with: | |
| python_version: ${{ matrix.python_version }} | |
| debug_enabled: ${{ needs.set-variables.outputs.debug }} | |
| - name: Build | |
| run: make docs-build | |
| - name: Upload artifact | |
| uses: actions/upload-pages-artifact@56afc609e74202658d3ffba0e8f6dda462b719fa # ratchet:actions/upload-pages-artifact@v3 | |
| with: | |
| path: ./site | |
| publish-docs: | |
| runs-on: ubuntu-latest | |
| needs: [build-release-docs, release] | |
| if: ${{ needs.release.outputs.released == 'true' }} | |
| permissions: | |
| id-token: write | |
| pages: write | |
| environment: | |
| name: github-pages | |
| url: ${{ steps.deployment.outputs.page_url }} | |
| steps: | |
| - name: Deploy to GitHub Pages | |
| id: deployment | |
| uses: actions/deploy-pages@d6db90164ac5ed86f2b6aed7e0febac5b3c0c03e # ratchet:actions/deploy-pages@v4 |