calkit-python 0.42.1__tar.gz → 0.44.0__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.gitmodules +3 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/AGENTS.md +4 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/Makefile +25 -2
- {calkit_python-0.42.1 → calkit_python-0.44.0}/PKG-INFO +3 -3
- {calkit_python-0.42.1 → calkit_python-0.44.0}/README.md +2 -2
- calkit_python-0.44.0/actions/run/README.md +115 -0
- calkit_python-0.44.0/actions/run/action.yml +349 -0
- calkit_python-0.44.0/actions/run/example.yml +36 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/agent-plugin/skills/conventions/SKILL.md +4 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/__init__.py +4 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/calc.py +19 -10
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/check.py +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/check.py +161 -24
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/describe.py +27 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/import_.py +1 -3
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/list.py +2 -2
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/main/core.py +321 -195
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/new.py +80 -17
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/notebooks.py +351 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/overleaf.py +445 -25
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/scheduler.py +29 -14
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/update.py +42 -40
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/config.py +7 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/core.py +488 -86
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/datasets.py +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/dependencies.py +58 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/detect.py +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/environments.py +330 -12
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/git.py +90 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/install.py +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/jupyterlab/routes.py +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/latex.py +10 -2
- calkit_python-0.44.0/calkit/models/core.py +1209 -0
- calkit_python-0.44.0/calkit/models/io.py +77 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/models/iteration.py +17 -28
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/models/pipeline.py +588 -96
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/notebooks.py +24 -2
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/overleaf.py +253 -45
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/pipeline.py +5 -2
- calkit_python-0.44.0/calkit/resources/README.md +26 -0
- calkit_python-0.44.0/calkit/resources/__init__.py +144 -0
- calkit_python-0.44.0/calkit/resources/devcontainer/Dockerfile +72 -0
- calkit_python-0.44.0/calkit/resources/devcontainer/README.md +49 -0
- calkit_python-0.44.0/calkit/resources/devcontainer/base.json +25 -0
- calkit_python-0.44.0/calkit/resources/devcontainer/devcontainer.json +58 -0
- calkit_python-0.44.0/calkit/resources/devcontainer/scripts/check-envs.sh +58 -0
- calkit_python-0.44.0/calkit/resources/devcontainer/scripts/post-create.sh +50 -0
- calkit_python-0.44.0/calkit/resources/devcontainer/scripts/post-start.sh +46 -0
- calkit_python-0.44.0/calkit/resources/devcontainer/scripts/update-content.sh +12 -0
- calkit_python-0.44.0/calkit/resources/github-actions/example.yml +36 -0
- calkit_python-0.44.0/calkit/resources/vscode/README.md +23 -0
- calkit_python-0.44.0/calkit/resources/vscode/extensions.json +22 -0
- calkit_python-0.44.0/calkit/resources/vscode/settings.json +15 -0
- calkit_python-0.44.0/calkit/schema.py +71 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/cli/main/test_core.py +227 -3
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/cli/test_check.py +104 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/cli/test_new.py +38 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/cli/test_overleaf.py +574 -17
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/cli/test_update.py +98 -0
- calkit_python-0.44.0/calkit/tests/models/test_core.py +203 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/models/test_pipeline.py +298 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/test_core.py +118 -10
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/test_dependencies.py +38 -0
- calkit_python-0.44.0/calkit/tests/test_docs_references.py +134 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/test_environments.py +368 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/test_git.py +54 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/test_magics.py +14 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/tests/test_notebooks.py +33 -0
- calkit_python-0.44.0/calkit/tests/test_resources.py +159 -0
- calkit_python-0.44.0/calkit/tests/test_schema.py +179 -0
- calkit_python-0.44.0/calkit/tests/test_workspace.py +1476 -0
- calkit_python-0.44.0/calkit/workspace.py +1890 -0
- calkit_python-0.44.0/docs/apps.md +140 -0
- calkit_python-0.44.0/docs/calkit-yaml.md +538 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/docs/cli-reference.md +181 -50
- calkit_python-0.44.0/docs/environments.md +1130 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/docs/index.md +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/docs/installation.md +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/docs/latex.md +2 -2
- {calkit_python-0.42.1 → calkit_python-0.44.0}/docs/overleaf.md +163 -5
- calkit_python-0.44.0/docs/pipeline/index.md +708 -0
- calkit_python-0.42.1/docs/dependencies.md → calkit_python-0.44.0/docs/requirements.md +98 -36
- calkit_python-0.44.0/docs/schemas/calkit.json +7653 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/docs/tutorials/adding-latex-pub-docker.md +2 -5
- {calkit_python-0.42.1 → calkit_python-0.44.0}/docs/tutorials/github-actions.md +7 -2
- {calkit_python-0.42.1 → calkit_python-0.44.0}/docs/tutorials/procedures.md +17 -27
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/backend/app/api/routes/projects/core.py +422 -102
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/backend/app/core.py +19 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/backend/app/dvc.py +2 -2
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/backend/app/git.py +2 -6
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/backend/app/models/core.py +12 -3
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/backend/app/models/projects.py +5 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/backend/app/projects.py +305 -34
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/backend/app/tests/api/routes/projects/test_core.py +490 -5
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/backend/app/tests/test_projects.py +340 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/Makefile +11 -4
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/client/index.ts +9 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/client/schemas.gen.ts +46 -3
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/client/sdk.gen.ts +103 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/client/types.gen.ts +116 -3
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/components/Common/PdfDocumentViewer.tsx +2 -2
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/components/Common/SidebarItems.tsx +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/components/Files/FileEditorModal.tsx +2 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/components/Notebooks/NotebookView.tsx +24 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/components/Pipeline/StageEditorModal.tsx +2 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/components/Publications/LatexEditor.tsx +2 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/lib/api.ts +13 -3
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/routeTree.gen.ts +79 -0
- calkit_python-0.44.0/hub/frontend/src/routes/_layout/$accountName/$projectName/_layout/app.tsx +15 -0
- calkit_python-0.44.0/hub/frontend/src/routes/_layout/$accountName/$projectName/_layout/apps/$appName.tsx +90 -0
- calkit_python-0.44.0/hub/frontend/src/routes/_layout/$accountName/$projectName/_layout/apps/index.tsx +49 -0
- calkit_python-0.44.0/hub/frontend/src/routes/_layout/$accountName/$projectName/_layout/apps.tsx +124 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/hub/frontend/src/routes/_layout/$accountName/$projectName/_layout/notebooks.tsx +63 -5
- {calkit_python-0.42.1 → calkit_python-0.44.0}/mkdocs.yml +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/pyproject.toml +24 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/scripts/generate-docs-references.py +327 -49
- calkit_python-0.44.0/scripts/list-changes.py +115 -0
- calkit_python-0.44.0/scripts/sync-resources.py +65 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/uv.lock +22 -39
- calkit_python-0.44.0/vscode-ext/.gitignore +5 -0
- calkit_python-0.44.0/vscode-ext/changelog-notes.md +21 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/vscode-ext/package.json +11 -1
- calkit_python-0.44.0/vscode-ext/schemas/calkit.json +7653 -0
- calkit_python-0.44.0/vscode-ext/scripts/gen-changelog.js +150 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/vscode-ext/src/environments.ts +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/vscode-ext/src/sidebar.ts +27 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/vscode-ext/src/test/environments.test.ts +3 -3
- {calkit_python-0.42.1 → calkit_python-0.44.0}/vscode-ext/src/test/kernel-selection.test.ts +1 -1
- {calkit_python-0.42.1 → calkit_python-0.44.0}/vscode-ext/src/types.ts +11 -0
- calkit_python-0.42.1/calkit/models/core.py +0 -484
- calkit_python-0.42.1/calkit/models/io.py +0 -53
- calkit_python-0.42.1/calkit/tests/models/test_core.py +0 -56
- calkit_python-0.42.1/docs/apps.md +0 -9
- calkit_python-0.42.1/docs/calkit-yaml.md +0 -42
- calkit_python-0.42.1/docs/environments.md +0 -784
- calkit_python-0.42.1/docs/pipeline/index.md +0 -480
- calkit_python-0.42.1/hub/frontend/src/routes/_layout/$accountName/$projectName/_layout/app.tsx +0 -64
- calkit_python-0.42.1/vscode-ext/.gitignore +0 -3
- calkit_python-0.42.1/vscode-ext/CHANGELOG.md +0 -6
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.claude-plugin/marketplace.json +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.dockerignore +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.gitattributes +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.gitignore +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.pre-commit-config.yaml +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.prettierignore +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.prettierrc.json +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.python-version +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.vscode/launch.json +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/.vscode/tasks.json +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/CITATION.cff +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/CODE_OF_CONDUCT.md +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/CONTRIBUTING.md +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/LICENSE +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/agent-plugin/.claude-plugin/plugin.json +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/agent-plugin/skills/add-pipeline-stage/SKILL.md +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/agent-plugin/skills/create-pipeline/SKILL.md +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/.gitignore +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/README.md +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/options.html +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/package-lock.json +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/package.json +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/popup.html +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/public/icons/calkit-128.png +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/public/icons/calkit-16.png +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/public/icons/calkit-32.png +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/public/icons/calkit-48.png +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/public/icons/calkit.svg +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/public/manifest.json +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/scripts/build-content.mjs +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/scripts/package-manifest.mjs +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/scripts/store-screenshots.py +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/scripts/watch.mjs +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/background/index.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/content/github.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/content/overleaf.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/content/references.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/api.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/auth.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/calkit-yaml.test.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/calkit-yaml.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/detect.test.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/detect.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/hub-url.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/hubs.test.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/hubs.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/latex.test.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/latex.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/lifecycle.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/messages.test.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/messages.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/pickers.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/storage.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/types.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/ui.test.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/core/ui.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/options/options.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/popup/popup.css +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/popup/popup.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/src/viewer/viewer.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/tsconfig.json +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/viewer.html +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/vite.config.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/vite.content.config.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/browser-ext/vitest.config.ts +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/__main__.py +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/__init__.py +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/config.py +0 -0
- {calkit_python-0.42.1 → calkit_python-0.44.0}/calkit/cli/core.py +0 -0
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so it requires [uv](https://docs.astral.sh/uv/) on `PATH`.
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You can also declare a minimum version in `calkit.yaml`;
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see
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-
[Pinning the Calkit CLI version](https://docs.calkit.org/
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+
[Pinning the Calkit CLI version](https://docs.calkit.org/requirements.md#pinning-the-calkit-cli-version).
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### Calkit Assistant
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@@ -37,7 +37,7 @@ without the cognitive overhead.
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<!-- https://docs.google.com/drawings/d/1XMGnbgYYNFAVUBDyUaCyLfRB7efvJdrnrKmFlNmT19o/edit -->
|
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-

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+

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## Features
|
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@@ -202,7 +202,7 @@ This re-execs the CLI via `uvx --from calkit-python@<version> calkit`,
|
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so it requires [uv](https://docs.astral.sh/uv/) on `PATH`.
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You can also declare a minimum version in `calkit.yaml`;
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see
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-
[Pinning the Calkit CLI version](https://docs.calkit.org/
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+
[Pinning the Calkit CLI version](https://docs.calkit.org/requirements.md#pinning-the-calkit-cli-version).
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### Calkit Assistant
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@@ -0,0 +1,115 @@
|
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1
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+
# Calkit run GitHub Action
|
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2
|
+
|
|
3
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+
A GitHub Action to run a Calkit project's pipeline and optionally save results
|
|
4
|
+
(commit and push) to Git and DVC.
|
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|
+
|
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+
The action lives in the Calkit repo because it's a thin wrapper around a
|
|
7
|
+
sequence of CLI commands, and it reads `calkit list environments` output to
|
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8
|
+
decide what tooling to install.
|
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|
+
Keeping it here means a change to either is tested against the other before
|
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release.
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+
|
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+
## Usage
|
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+
|
|
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+
Reference the action by a Calkit release tag:
|
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|
+
|
|
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|
+
```yaml
|
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+
- uses: calkit/calkit/actions/run@v0.43.0
|
|
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|
+
```
|
|
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|
+
|
|
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|
+
The easiest way to add it to a project is:
|
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|
+
|
|
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|
+
```sh
|
|
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|
+
calkit update github-actions
|
|
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|
+
```
|
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+
|
|
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|
+
which writes the workflow below to `.github/workflows/run-calkit.yml`,
|
|
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|
+
pinned to the version of Calkit that wrote it.
|
|
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|
+
Rerun it after upgrading Calkit to move the pin.
|
|
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+
|
|
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|
+
<!-- Do not edit the snippet below since it is automatically populated -->
|
|
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|
+
<!-- snippet:example.yml:start -->
|
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|
+
|
|
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|
+
```yaml
|
|
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|
+
name: Run pipeline
|
|
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|
+
|
|
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|
+
on:
|
|
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|
+
push:
|
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|
+
branches:
|
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|
+
- main
|
|
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|
+
pull_request:
|
|
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|
+
workflow_dispatch:
|
|
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|
+
|
|
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|
+
permissions:
|
|
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|
+
contents: write
|
|
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|
+
id-token: write
|
|
46
|
+
|
|
47
|
+
# Make sure we only ever run one per branch so we don't have issues pushing
|
|
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|
+
# after running the pipeline
|
|
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|
+
concurrency:
|
|
50
|
+
group: calkit-run-${{ github.ref }}
|
|
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|
+
cancel-in-progress: false
|
|
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|
+
|
|
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|
+
jobs:
|
|
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|
+
main:
|
|
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|
+
name: Run
|
|
56
|
+
runs-on: ubuntu-latest
|
|
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|
+
steps:
|
|
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|
+
- uses: actions/checkout@v4
|
|
59
|
+
with:
|
|
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|
+
# For PRs, checkout the head ref to avoid detached HEAD
|
|
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|
+
ref: ${{ github.head_ref || github.ref_name }}
|
|
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|
+
token: ${{ secrets.GITHUB_TOKEN }}
|
|
63
|
+
- name: Configure Git credentials
|
|
64
|
+
run: |
|
|
65
|
+
git config user.name github-actions[bot]
|
|
66
|
+
git config user.email 41898282+github-actions[bot]@users.noreply.github.com
|
|
67
|
+
# This action automatically runs necessary setup steps based on environments
|
|
68
|
+
- name: Run Calkit
|
|
69
|
+
uses: calkit/calkit/actions/run@main
|
|
70
|
+
```
|
|
71
|
+
|
|
72
|
+
<!-- snippet:example.yml:end -->
|
|
73
|
+
|
|
74
|
+
Note the permissions, concurrency, and checkout options.
|
|
75
|
+
The action detects required environment kinds from `calkit.yaml` and sets up
|
|
76
|
+
needed tooling (for example Calkit via `uv`, Julia, Pixi, Conda, R, MATLAB,
|
|
77
|
+
and Docker Buildx) before running.
|
|
78
|
+
|
|
79
|
+
## Configuration
|
|
80
|
+
|
|
81
|
+
If simply running the pipeline is desired, the `save` option can be set to
|
|
82
|
+
`false`.
|
|
83
|
+
Additionally, caching DVC data can be disabled with `cache_dvc: false`.
|
|
84
|
+
When caching is enabled, the action saves DVC cache entries using the current
|
|
85
|
+
branch name plus the current commit SHA.
|
|
86
|
+
The restore step first looks for the
|
|
87
|
+
most recent cache for the current branch and then falls back to the default
|
|
88
|
+
branch cache if the current branch cache doesn't exist yet.
|
|
89
|
+
|
|
90
|
+
## System dependencies
|
|
91
|
+
|
|
92
|
+
System dependencies like `uv`, `pixi`, `conda`, `juliaup` will be installed
|
|
93
|
+
automatically if missing, and if the project has an environment with the
|
|
94
|
+
corresponding kind.
|
|
95
|
+
If you'd like control over which versions are used, you can add setup steps
|
|
96
|
+
before the Calkit Action, and Calkit will detect and skip installation.
|
|
97
|
+
|
|
98
|
+
## Development
|
|
99
|
+
|
|
100
|
+
`example.yml` is the source for both the snippet above and the copy bundled
|
|
101
|
+
into the Python package at `calkit/resources/github-actions`.
|
|
102
|
+
After editing it, run `make sync-resources`.
|
|
103
|
+
|
|
104
|
+
CI runs the action against real example projects on every pull request that
|
|
105
|
+
touches this directory, with Calkit installed from the working tree first, so
|
|
106
|
+
the action exercises the CLI being changed rather than the last release.
|
|
107
|
+
|
|
108
|
+
## Previous home
|
|
109
|
+
|
|
110
|
+
This action was previously published from
|
|
111
|
+
[`calkit/run-action`](https://github.com/calkit/run-action), which is no
|
|
112
|
+
longer maintained.
|
|
113
|
+
Workflows referencing `calkit/run-action@v2` still work, but should be
|
|
114
|
+
updated to `calkit/calkit/actions/run@<version>`, which
|
|
115
|
+
`calkit update github-actions` will do in place.
|
|
@@ -0,0 +1,349 @@
|
|
|
1
|
+
name: Run Calkit
|
|
2
|
+
description: >
|
|
3
|
+
Run a Calkit project pipeline and optionally commit and push results to Git
|
|
4
|
+
and DVC remotes.
|
|
5
|
+
branding:
|
|
6
|
+
icon: arrow-right
|
|
7
|
+
color: green
|
|
8
|
+
inputs:
|
|
9
|
+
save:
|
|
10
|
+
description: Whether or not to save (commit and push) results to Git and DVC remotes.
|
|
11
|
+
default: "true"
|
|
12
|
+
dvc_token:
|
|
13
|
+
description:
|
|
14
|
+
DVC token for pushing results. If not provided, will be obtained
|
|
15
|
+
via GitHub OIDC.
|
|
16
|
+
required: false
|
|
17
|
+
pull_dvc:
|
|
18
|
+
description: Whether or not to pull DVC data before running.
|
|
19
|
+
required: false
|
|
20
|
+
default: "true"
|
|
21
|
+
cache_dvc:
|
|
22
|
+
description: Whether or not to cache DVC data.
|
|
23
|
+
required: false
|
|
24
|
+
default: "true"
|
|
25
|
+
run_args:
|
|
26
|
+
description: Arguments passed to calkit run command.
|
|
27
|
+
required: false
|
|
28
|
+
default: ""
|
|
29
|
+
outputs: {}
|
|
30
|
+
runs:
|
|
31
|
+
using: composite
|
|
32
|
+
steps:
|
|
33
|
+
- name: Check for uv and Calkit
|
|
34
|
+
id: tools
|
|
35
|
+
shell: bash
|
|
36
|
+
run: |
|
|
37
|
+
set -euo pipefail
|
|
38
|
+
if command -v uv >/dev/null 2>&1; then
|
|
39
|
+
echo "uv_missing=false" >> "$GITHUB_OUTPUT"
|
|
40
|
+
else
|
|
41
|
+
echo "uv_missing=true" >> "$GITHUB_OUTPUT"
|
|
42
|
+
fi
|
|
43
|
+
if command -v calkit >/dev/null 2>&1; then
|
|
44
|
+
echo "calkit_missing=false" >> "$GITHUB_OUTPUT"
|
|
45
|
+
else
|
|
46
|
+
echo "calkit_missing=true" >> "$GITHUB_OUTPUT"
|
|
47
|
+
fi
|
|
48
|
+
|
|
49
|
+
# uv is only needed up front to install Calkit; uv-venv projects that
|
|
50
|
+
# need uv but already have Calkit are handled by the uv step after
|
|
51
|
+
# detection.
|
|
52
|
+
- name: Setup uv
|
|
53
|
+
if: ${{ steps.tools.outputs.uv_missing == 'true' && steps.tools.outputs.calkit_missing == 'true' }}
|
|
54
|
+
uses: astral-sh/setup-uv@v5
|
|
55
|
+
|
|
56
|
+
- name: Install Calkit
|
|
57
|
+
if: ${{ steps.tools.outputs.calkit_missing == 'true' }}
|
|
58
|
+
shell: bash
|
|
59
|
+
run: |
|
|
60
|
+
uv tool install calkit-python
|
|
61
|
+
echo "$HOME/.local/bin" >> "$GITHUB_PATH"
|
|
62
|
+
|
|
63
|
+
- name: Detect setup requirements
|
|
64
|
+
id: detect
|
|
65
|
+
shell: bash
|
|
66
|
+
run: |
|
|
67
|
+
set -euo pipefail
|
|
68
|
+
|
|
69
|
+
# Let Calkit parse its own config so we only look at the
|
|
70
|
+
# `environments` section (a real YAML parse that also resolves
|
|
71
|
+
# includes), rather than grepping every `kind:` in the file --
|
|
72
|
+
# pipeline stages, dependencies, datasets, etc. all use `kind:` too.
|
|
73
|
+
kinds=$(calkit list environments 2>/dev/null \
|
|
74
|
+
| grep -E '^[[:space:]]+kind:' \
|
|
75
|
+
| sed -E 's/^[[:space:]]+kind:[[:space:]]*//; s/[[:space:]]+#.*$//' \
|
|
76
|
+
| tr -d "\"'" | sort -u || true)
|
|
77
|
+
echo "Detected environment kinds: $(echo "$kinds" | paste -sd, -)"
|
|
78
|
+
|
|
79
|
+
has_kind() {
|
|
80
|
+
printf '%s\n' "$kinds" | grep -qx "$1"
|
|
81
|
+
}
|
|
82
|
+
|
|
83
|
+
if command -v python >/dev/null 2>&1 || command -v python3 >/dev/null 2>&1; then
|
|
84
|
+
python_missing=false
|
|
85
|
+
else
|
|
86
|
+
python_missing=true
|
|
87
|
+
fi
|
|
88
|
+
|
|
89
|
+
if command -v uv >/dev/null 2>&1; then
|
|
90
|
+
uv_missing=false
|
|
91
|
+
else
|
|
92
|
+
uv_missing=true
|
|
93
|
+
fi
|
|
94
|
+
|
|
95
|
+
if command -v conda >/dev/null 2>&1; then
|
|
96
|
+
conda_missing=false
|
|
97
|
+
else
|
|
98
|
+
conda_missing=true
|
|
99
|
+
fi
|
|
100
|
+
|
|
101
|
+
if command -v pixi >/dev/null 2>&1; then
|
|
102
|
+
pixi_missing=false
|
|
103
|
+
else
|
|
104
|
+
pixi_missing=true
|
|
105
|
+
fi
|
|
106
|
+
|
|
107
|
+
# Calkit manages Julia versions via juliaup (e.g. `juliaup add
|
|
108
|
+
# 1.11.7` for a `julia: "1.11.7"` environment), so juliaup -- not a
|
|
109
|
+
# fixed Julia -- is what must be present. We deliberately gate only on
|
|
110
|
+
# juliaup and ignore any plain `julia` on the runner: hosted runner
|
|
111
|
+
# images ship a pinned Julia that usually won't match the project's
|
|
112
|
+
# required version, and without juliaup Calkit can't install the right
|
|
113
|
+
# one. Users who manage Julia themselves should install juliaup, which
|
|
114
|
+
# this then detects and leaves alone.
|
|
115
|
+
if command -v juliaup >/dev/null 2>&1; then
|
|
116
|
+
juliaup_missing=false
|
|
117
|
+
else
|
|
118
|
+
juliaup_missing=true
|
|
119
|
+
fi
|
|
120
|
+
|
|
121
|
+
if command -v Rscript >/dev/null 2>&1 || command -v R >/dev/null 2>&1; then
|
|
122
|
+
r_missing=false
|
|
123
|
+
else
|
|
124
|
+
r_missing=true
|
|
125
|
+
fi
|
|
126
|
+
|
|
127
|
+
if command -v matlab >/dev/null 2>&1; then
|
|
128
|
+
matlab_missing=false
|
|
129
|
+
else
|
|
130
|
+
matlab_missing=true
|
|
131
|
+
fi
|
|
132
|
+
|
|
133
|
+
if command -v docker >/dev/null 2>&1 && docker buildx version >/dev/null 2>&1; then
|
|
134
|
+
docker_buildx_missing=false
|
|
135
|
+
else
|
|
136
|
+
docker_buildx_missing=true
|
|
137
|
+
fi
|
|
138
|
+
|
|
139
|
+
needs_python=false
|
|
140
|
+
needs_uv=false
|
|
141
|
+
needs_conda=false
|
|
142
|
+
needs_pixi=false
|
|
143
|
+
needs_julia=false
|
|
144
|
+
needs_r=false
|
|
145
|
+
needs_matlab=false
|
|
146
|
+
needs_docker=false
|
|
147
|
+
docker_cli_missing=false
|
|
148
|
+
unsupported_kinds=""
|
|
149
|
+
|
|
150
|
+
if has_kind "uv-venv" || has_kind "venv" || has_kind "uv"; then
|
|
151
|
+
if [ "$python_missing" = true ]; then
|
|
152
|
+
needs_python=true
|
|
153
|
+
fi
|
|
154
|
+
fi
|
|
155
|
+
# uv is installed up front to install Calkit, so it is normally
|
|
156
|
+
# already present here; this covers the case where Calkit was
|
|
157
|
+
# pre-installed (so we skipped the initial uv setup) but uv is not.
|
|
158
|
+
if has_kind "uv-venv" || has_kind "uv"; then
|
|
159
|
+
if [ "$uv_missing" = true ]; then
|
|
160
|
+
needs_uv=true
|
|
161
|
+
fi
|
|
162
|
+
fi
|
|
163
|
+
if has_kind "conda"; then
|
|
164
|
+
if [ "$conda_missing" = true ]; then
|
|
165
|
+
needs_conda=true
|
|
166
|
+
fi
|
|
167
|
+
if [ "$python_missing" = true ]; then
|
|
168
|
+
needs_python=true
|
|
169
|
+
fi
|
|
170
|
+
fi
|
|
171
|
+
if has_kind "pixi"; then
|
|
172
|
+
if [ "$pixi_missing" = true ]; then
|
|
173
|
+
needs_pixi=true
|
|
174
|
+
fi
|
|
175
|
+
fi
|
|
176
|
+
if has_kind "julia"; then
|
|
177
|
+
if [ "$juliaup_missing" = true ]; then
|
|
178
|
+
needs_julia=true
|
|
179
|
+
fi
|
|
180
|
+
fi
|
|
181
|
+
if has_kind "renv"; then
|
|
182
|
+
if [ "$r_missing" = true ]; then
|
|
183
|
+
needs_r=true
|
|
184
|
+
fi
|
|
185
|
+
fi
|
|
186
|
+
if has_kind "matlab"; then
|
|
187
|
+
if [ "$matlab_missing" = true ]; then
|
|
188
|
+
needs_matlab=true
|
|
189
|
+
fi
|
|
190
|
+
fi
|
|
191
|
+
if has_kind "docker"; then
|
|
192
|
+
if command -v docker >/dev/null 2>&1; then
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if [ "$docker_buildx_missing" = true ]; then
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needs_docker=true
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fi
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else
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docker_cli_missing=true
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fi
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fi
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+
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# These kinds do not have a direct setup action in this composite action.
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if has_kind "ssh"; then unsupported_kinds="${unsupported_kinds}ssh,"; fi
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if has_kind "slurm"; then unsupported_kinds="${unsupported_kinds}slurm,"; fi
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if has_kind "pbs"; then unsupported_kinds="${unsupported_kinds}pbs,"; fi
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if has_kind "nix"; then unsupported_kinds="${unsupported_kinds}nix,"; fi
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unsupported_kinds="${unsupported_kinds%,}"
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+
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echo "needs_python=${needs_python}" >> "$GITHUB_OUTPUT"
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echo "needs_uv=${needs_uv}" >> "$GITHUB_OUTPUT"
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echo "needs_conda=${needs_conda}" >> "$GITHUB_OUTPUT"
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echo "needs_pixi=${needs_pixi}" >> "$GITHUB_OUTPUT"
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echo "needs_julia=${needs_julia}" >> "$GITHUB_OUTPUT"
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echo "needs_r=${needs_r}" >> "$GITHUB_OUTPUT"
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echo "needs_matlab=${needs_matlab}" >> "$GITHUB_OUTPUT"
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echo "needs_docker=${needs_docker}" >> "$GITHUB_OUTPUT"
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echo "docker_cli_missing=${docker_cli_missing}" >> "$GITHUB_OUTPUT"
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echo "unsupported_kinds=${unsupported_kinds}" >> "$GITHUB_OUTPUT"
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+
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- name: Setup uv for uv and uv-venv environments
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if: ${{ steps.detect.outputs.needs_uv == 'true' }}
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uses: astral-sh/setup-uv@v5
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+
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+
- name: Setup Python
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+
if: ${{ steps.detect.outputs.needs_python == 'true' }}
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+
uses: actions/setup-python@v5
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with:
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python-version: "3.x"
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+
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+
- name: Setup Miniconda
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+
if: ${{ steps.detect.outputs.needs_conda == 'true' }}
|
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|
+
uses: conda-incubator/setup-miniconda@v3
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with:
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+
auto-activate-base: true
|
|
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|
+
conda-remove-defaults: true
|
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|
+
|
|
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|
+
- name: Setup Pixi
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|
237
|
+
if: ${{ steps.detect.outputs.needs_pixi == 'true' }}
|
|
238
|
+
uses: prefix-dev/setup-pixi@v0.9.6
|
|
239
|
+
with:
|
|
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|
+
run-install: false
|
|
241
|
+
|
|
242
|
+
# Install juliaup (not a fixed Julia) so Calkit can install and select
|
|
243
|
+
# the exact Julia version(s) declared in each environment via
|
|
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|
+
# `juliaup add`. The channel here is just a default bootstrap install.
|
|
245
|
+
- name: Setup juliaup
|
|
246
|
+
if: ${{ steps.detect.outputs.needs_julia == 'true' }}
|
|
247
|
+
uses: julia-actions/install-juliaup@v2
|
|
248
|
+
with:
|
|
249
|
+
channel: "1"
|
|
250
|
+
|
|
251
|
+
- name: Setup R
|
|
252
|
+
if: ${{ steps.detect.outputs.needs_r == 'true' }}
|
|
253
|
+
uses: r-lib/actions/setup-r@v2
|
|
254
|
+
|
|
255
|
+
- name: Setup MATLAB
|
|
256
|
+
if: ${{ steps.detect.outputs.needs_matlab == 'true' }}
|
|
257
|
+
uses: matlab-actions/setup-matlab@v2
|
|
258
|
+
|
|
259
|
+
- name: Setup Docker Buildx
|
|
260
|
+
if: ${{ steps.detect.outputs.needs_docker == 'true' }}
|
|
261
|
+
uses: docker/setup-buildx-action@v3
|
|
262
|
+
|
|
263
|
+
- name: Report unsupported environment kinds
|
|
264
|
+
if: ${{ steps.detect.outputs.unsupported_kinds != '' }}
|
|
265
|
+
shell: bash
|
|
266
|
+
run: |
|
|
267
|
+
echo "::notice::Detected environment kinds without explicit setup action: ${{ steps.detect.outputs.unsupported_kinds }}"
|
|
268
|
+
|
|
269
|
+
- name: Report missing Docker CLI for docker environments
|
|
270
|
+
if: ${{ steps.detect.outputs.docker_cli_missing == 'true' }}
|
|
271
|
+
shell: bash
|
|
272
|
+
run: |
|
|
273
|
+
echo "::notice::Detected kind 'docker' in calkit.yaml, but Docker CLI is not available on this runner. Install Docker on the runner to use docker environments."
|
|
274
|
+
|
|
275
|
+
- name: Restore DVC cache for current branch
|
|
276
|
+
if: ${{ inputs.cache_dvc == 'true' }}
|
|
277
|
+
id: cache-dvc-restore
|
|
278
|
+
uses: actions/cache/restore@v5
|
|
279
|
+
with:
|
|
280
|
+
path: .dvc/cache
|
|
281
|
+
key: >-
|
|
282
|
+
${{ runner.os }}-dvc-cache-${{ github.head_ref || github.ref_name }}-${{ github.sha }}
|
|
283
|
+
restore-keys: |
|
|
284
|
+
${{ runner.os }}-dvc-cache-${{ github.head_ref || github.ref_name }}-
|
|
285
|
+
${{ runner.os }}-dvc-cache-${{ github.event.repository.default_branch }}-
|
|
286
|
+
|
|
287
|
+
- name: Get GitHub OIDC token
|
|
288
|
+
if: ${{ !inputs.dvc_token && (inputs.save == 'true' || inputs.pull_dvc ==
|
|
289
|
+
'true') }}
|
|
290
|
+
id: get-oidc-token
|
|
291
|
+
shell: bash
|
|
292
|
+
run: |
|
|
293
|
+
OIDC_TOKEN=$(curl -H "Authorization: Bearer $ACTIONS_ID_TOKEN_REQUEST_TOKEN" "$ACTIONS_ID_TOKEN_REQUEST_URL&audience=calkit.io" -s | jq -r '.value')
|
|
294
|
+
if [ -z "$OIDC_TOKEN" ] || [ "$OIDC_TOKEN" == "null" ]; then
|
|
295
|
+
echo "Failed to obtain OIDC token"
|
|
296
|
+
exit 1
|
|
297
|
+
fi
|
|
298
|
+
echo "::add-mask::$OIDC_TOKEN"
|
|
299
|
+
echo "oidc-token=$OIDC_TOKEN" >> $GITHUB_OUTPUT
|
|
300
|
+
|
|
301
|
+
- name: Exchange OIDC token for Calkit token
|
|
302
|
+
if: ${{ !inputs.dvc_token && (inputs.save == 'true' || inputs.pull_dvc ==
|
|
303
|
+
'true') }}
|
|
304
|
+
id: get-calkit-token
|
|
305
|
+
shell: bash
|
|
306
|
+
run: |
|
|
307
|
+
CALKIT_TOKEN=$(curl -X POST https://api.calkit.io/login/github-oidc \
|
|
308
|
+
-H "Authorization: Bearer ${{ steps.get-oidc-token.outputs.oidc-token }}" \
|
|
309
|
+
-s | jq -r '.access_token')
|
|
310
|
+
if [ -z "$CALKIT_TOKEN" ] || [ "$CALKIT_TOKEN" == "null" ]; then
|
|
311
|
+
echo "Failed to obtain Calkit token"
|
|
312
|
+
exit 1
|
|
313
|
+
fi
|
|
314
|
+
echo "::add-mask::$CALKIT_TOKEN"
|
|
315
|
+
echo "calkit-token=$CALKIT_TOKEN" >> $GITHUB_OUTPUT
|
|
316
|
+
|
|
317
|
+
- run: calkit config remote-auth
|
|
318
|
+
if: ${{ inputs.save == 'true' || inputs.pull_dvc == 'true' }}
|
|
319
|
+
shell: bash
|
|
320
|
+
env:
|
|
321
|
+
CALKIT_TOKEN: ${{ inputs.dvc_token || steps.get-calkit-token.outputs.calkit-token }}
|
|
322
|
+
CALKIT_DVC_TOKEN: ${{ inputs.dvc_token || steps.get-calkit-token.outputs.calkit-token }}
|
|
323
|
+
|
|
324
|
+
- run: calkit dvc pull
|
|
325
|
+
if: ${{ inputs.pull_dvc == 'true' }}
|
|
326
|
+
shell: bash
|
|
327
|
+
continue-on-error: true
|
|
328
|
+
env:
|
|
329
|
+
CALKIT_TOKEN: ${{ inputs.dvc_token || steps.get-calkit-token.outputs.calkit-token }}
|
|
330
|
+
CALKIT_DVC_TOKEN: ${{ inputs.dvc_token || steps.get-calkit-token.outputs.calkit-token }}
|
|
331
|
+
|
|
332
|
+
- run: calkit run ${{ inputs.run_args }}
|
|
333
|
+
shell: bash
|
|
334
|
+
|
|
335
|
+
- run: calkit save -am "Run pipeline"
|
|
336
|
+
if: ${{ inputs.save == 'true' }}
|
|
337
|
+
shell: bash
|
|
338
|
+
env:
|
|
339
|
+
CALKIT_TOKEN: ${{ inputs.dvc_token || steps.get-calkit-token.outputs.calkit-token }}
|
|
340
|
+
CALKIT_DVC_TOKEN: ${{ inputs.dvc_token || steps.get-calkit-token.outputs.calkit-token }}
|
|
341
|
+
|
|
342
|
+
- name: Save DVC cache
|
|
343
|
+
if: ${{ inputs.cache_dvc == 'true' }}
|
|
344
|
+
id: cache-dvc-save
|
|
345
|
+
uses: actions/cache/save@v5
|
|
346
|
+
with:
|
|
347
|
+
path: .dvc/cache
|
|
348
|
+
key: >-
|
|
349
|
+
${{ runner.os }}-dvc-cache-${{ github.head_ref || github.ref_name }}-${{ github.sha }}
|
|
@@ -0,0 +1,36 @@
|
|
|
1
|
+
name: Run pipeline
|
|
2
|
+
|
|
3
|
+
on:
|
|
4
|
+
push:
|
|
5
|
+
branches:
|
|
6
|
+
- main
|
|
7
|
+
pull_request:
|
|
8
|
+
workflow_dispatch:
|
|
9
|
+
|
|
10
|
+
permissions:
|
|
11
|
+
contents: write
|
|
12
|
+
id-token: write
|
|
13
|
+
|
|
14
|
+
# Make sure we only ever run one per branch so we don't have issues pushing
|
|
15
|
+
# after running the pipeline
|
|
16
|
+
concurrency:
|
|
17
|
+
group: calkit-run-${{ github.ref }}
|
|
18
|
+
cancel-in-progress: false
|
|
19
|
+
|
|
20
|
+
jobs:
|
|
21
|
+
main:
|
|
22
|
+
name: Run
|
|
23
|
+
runs-on: ubuntu-latest
|
|
24
|
+
steps:
|
|
25
|
+
- uses: actions/checkout@v4
|
|
26
|
+
with:
|
|
27
|
+
# For PRs, checkout the head ref to avoid detached HEAD
|
|
28
|
+
ref: ${{ github.head_ref || github.ref_name }}
|
|
29
|
+
token: ${{ secrets.GITHUB_TOKEN }}
|
|
30
|
+
- name: Configure Git credentials
|
|
31
|
+
run: |
|
|
32
|
+
git config user.name github-actions[bot]
|
|
33
|
+
git config user.email 41898282+github-actions[bot]@users.noreply.github.com
|
|
34
|
+
# This action automatically runs necessary setup steps based on environments
|
|
35
|
+
- name: Run Calkit
|
|
36
|
+
uses: calkit/calkit/actions/run@main
|
|
@@ -18,6 +18,10 @@ is `calkit.yaml`, the project's metadata database.
|
|
|
18
18
|
|
|
19
19
|
`calkit.yaml` lives at the repo root and contains:
|
|
20
20
|
|
|
21
|
+
- `requirements`—what must be true of the machine before anything runs
|
|
22
|
+
(apps on `PATH`, environmental variables, setup steps, machine
|
|
23
|
+
properties like CPU count); formerly called `dependencies`, which
|
|
24
|
+
still works
|
|
21
25
|
- `environments`—computational environments (Python venvs, Conda, Docker,
|
|
22
26
|
R, Julia, MATLAB, etc.)
|
|
23
27
|
- `pipeline.stages`—the reproducible pipeline
|
|
@@ -38,6 +38,8 @@ if TYPE_CHECKING:
|
|
|
38
38
|
overleaf,
|
|
39
39
|
pipeline,
|
|
40
40
|
releases,
|
|
41
|
+
resources,
|
|
42
|
+
schema,
|
|
41
43
|
server,
|
|
42
44
|
templates,
|
|
43
45
|
)
|
|
@@ -61,6 +63,7 @@ _SUBMODULES = {
|
|
|
61
63
|
"github",
|
|
62
64
|
"invenio",
|
|
63
65
|
"releases",
|
|
66
|
+
"resources",
|
|
64
67
|
"licenses",
|
|
65
68
|
"overleaf",
|
|
66
69
|
"julia",
|
|
@@ -76,6 +79,7 @@ _SUBMODULES = {
|
|
|
76
79
|
"install",
|
|
77
80
|
"magics",
|
|
78
81
|
"ops",
|
|
82
|
+
"schema",
|
|
79
83
|
"server",
|
|
80
84
|
}
|
|
81
85
|
|