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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,49 @@ | ||
| name: pdoc | ||
|
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| defaults: | ||
| run: | ||
| shell: bash | ||
|
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| on: | ||
| push: | ||
| branches: [ main ] | ||
| pull_request: | ||
| branches: [ main ] | ||
| schedule: | ||
| - cron: '0 13 * * 4' | ||
|
|
||
| jobs: | ||
| pdoc: | ||
| strategy: | ||
| matrix: | ||
| platform: [ubuntu-latest, macos-latest, windows-latest] | ||
| runs-on: ${{ matrix.platform }} | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| with: | ||
| submodules: recursive | ||
| persist-credentials: false | ||
| - uses: actions/[email protected] | ||
| with: | ||
| python-version: 3.9 | ||
| - env: | ||
| JUPYTER_PLATFORM_DIRS: 1 | ||
| run: | | ||
| pip3 install pdoc nbformat | ||
| pip install -e . -e ./examples | ||
| python - <<EOF | ||
| import glob, nbformat | ||
| for notebook_path in glob.glob('examples/PyMPDATA_examples/*/*.ipynb'): | ||
| with open(notebook_path, encoding="utf8") as fin: | ||
| with open(notebook_path + ".badges.md", 'w') as fout: | ||
| fout.write(nbformat.read(fin, nbformat.NO_CONVERT).cells[0].source) | ||
| EOF | ||
| PDOC_ALLOW_EXEC=1 python -We -m pdoc -o html PyMPDATA examples/PyMPDATA_examples -t docs/templates --math | ||
| - if: ${{ github.ref == 'refs/heads/main' && matrix.platform == 'ubuntu-latest' }} | ||
| uses: JamesIves/[email protected] | ||
| with: | ||
| branch: pdoc | ||
| folder: html | ||
| clean: true |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,19 @@ | ||
| name: Add new issues and pull requests to project board | ||
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| on: | ||
| issues: | ||
| types: | ||
| - opened | ||
| pull_request_target: | ||
| types: | ||
| - opened | ||
|
|
||
| jobs: | ||
| add-to-project: | ||
| name: Add to project | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| - uses: actions/[email protected] | ||
| with: | ||
| project-url: https://github.com/orgs/open-atmos/projects/6 | ||
| github-token: ${{ secrets.ADD_TO_PROJECT_PAT }} |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,57 @@ | ||
| name: pypi | ||
|
|
||
| defaults: | ||
| run: | ||
| shell: bash | ||
|
|
||
| on: | ||
| push: | ||
| branches: [ main ] | ||
| pull_request: | ||
| branches: [ main ] | ||
| schedule: | ||
| - cron: '0 13 * * 4' | ||
| release: | ||
| types: [published] | ||
|
|
||
| jobs: | ||
| dist: | ||
| strategy: | ||
| matrix: | ||
| package-dir: [".", "examples"] | ||
| fail-fast: false | ||
| runs-on: ubuntu-latest | ||
| permissions: | ||
| id-token: write | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| with: | ||
| submodules: recursive | ||
| fetch-depth: 0 # https://github.com/pypa/setuptools_scm/issues/480 | ||
| - uses: actions/[email protected] | ||
| with: | ||
| python-version: "3.10" | ||
|
|
||
| - run: pip install twine build | ||
|
|
||
| - run: | | ||
| unset CI | ||
| cd ${{ matrix.package-dir }} | ||
| python -m build 2>&1 | tee build.log | ||
| exit `fgrep -v "warning: no previously-included files matching" buid.log | fgrep -i warning | wc -l` | ||
| twine check --strict dist/* | ||
| exit `tar tzf dist/*.tar.gz | fgrep ".ipynb" | wc -l` | ||
| cd .. | ||
| - if: github.event_name == 'push' && github.ref == 'refs/heads/main' | ||
| uses: pypa/gh-action-pypi-publish@release/v1.12 | ||
| with: | ||
| attestations: false | ||
| repository_url: https://test.pypi.org/legacy/ | ||
| packages-dir: ${{ matrix.package-dir }}/dist | ||
|
|
||
| - if: startsWith(github.ref, 'refs/tags') | ||
| uses: pypa/gh-action-pypi-publish@release/v1.12 | ||
| with: | ||
| attestations: false | ||
| packages-dir: ${{ matrix.package-dir }}/dist |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,4 +1,4 @@ | ||
| name: tests+pypi | ||
| name: tests | ||
|
|
||
| defaults: | ||
| run: | ||
|
|
@@ -11,8 +11,6 @@ on: | |
| branches: [ main ] | ||
| schedule: | ||
| - cron: '0 13 * * 4' | ||
| release: | ||
| types: [published] | ||
|
|
||
| jobs: | ||
| precommit: | ||
|
|
@@ -21,44 +19,20 @@ jobs: | |
| - uses: actions/checkout@v2 | ||
| - uses: actions/[email protected] | ||
| with: | ||
| python-version: "3.10" | ||
| python-version: "3.10" | ||
| - run: | | ||
| pip install pre-commit | ||
| pre-commit clean | ||
| pre-commit autoupdate | ||
| pre-commit run --all-files | ||
| nojit_and_codecov: | ||
| runs-on: ubuntu-latest | ||
| env: | ||
| NUMBA_DISABLE_JIT: 1 | ||
| steps: | ||
| - uses: actions/checkout@master | ||
| with: | ||
| submodules: recursive | ||
| fetch-depth: 0 | ||
| - uses: actions/[email protected] | ||
| with: | ||
| python-version: 3.9 | ||
| - name: Generate coverage report | ||
| run: | | ||
| pip install -e .[tests] -e ./examples | ||
| pip install pytest-cov | ||
| pytest --durations=10 -We tests/unit_tests --cov-report=xml --cov=PyMPDATA | ||
| - name: Upload coverage to Codecov | ||
| uses: codecov/codecov-action@v4 | ||
| with: | ||
| token: ${{ secrets.CODECOV_TOKEN }} | ||
| fail_ci_if_error: true | ||
| verbose: true | ||
|
|
||
| pylint: | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| with: | ||
| submodules: recursive | ||
| fetch-depth: 0 | ||
| fetch-depth: 0 | ||
| - name: Set up Python 3.9 | ||
| uses: actions/[email protected] | ||
| with: | ||
|
|
@@ -79,53 +53,57 @@ jobs: | |
| # TODO #299 | ||
| nbqa pylint --disable=fixme,trailing-whitespace,wrong-import-position,wrong-import-order,ungrouped-imports \ | ||
| --disable=duplicate-code,invalid-name,missing-module-docstring,line-too-long,missing-function-docstring,redefined-outer-name,too-many-arguments,no-member,too-many-locals,cell-var-from-loop,missing-class-docstring $(git ls-files '*.ipynb') | ||
| pdoc: | ||
| strategy: | ||
| matrix: | ||
| platform: [ubuntu-latest, macos-latest, windows-latest] | ||
| runs-on: ${{ matrix.platform }} | ||
| zenodo_json: | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| - uses: notiz-dev/github-action-json-property@release | ||
| with: | ||
| path: '.zenodo.json' | ||
| prop_path: 'creators' | ||
|
|
||
| devops: | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| with: | ||
| submodules: recursive | ||
| fetch-depth: 0 # https://github.com/pypa/setuptools_scm/issues/480 | ||
| - run: pip install -r tests/devops_tests/requirements.txt | ||
| - run: pip install -e . -e ./examples | ||
| - env: | ||
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | ||
| run: pytest --durations=10 -v -s -We -p no:unraisableexception -k "not run_notebooks" tests/devops_tests | ||
|
|
||
| nojit_and_codecov: | ||
| needs: [ precommit, pylint, zenodo_json, devops ] | ||
| runs-on: ubuntu-latest | ||
| env: | ||
| NUMBA_DISABLE_JIT: 1 | ||
| steps: | ||
| - uses: actions/checkout@master | ||
| with: | ||
| submodules: recursive | ||
| persist-credentials: false | ||
| fetch-depth: 0 | ||
| - uses: actions/[email protected] | ||
| with: | ||
| python-version: 3.9 | ||
| - env: | ||
| JUPYTER_PLATFORM_DIRS: 1 | ||
| - name: Generate coverage report | ||
| run: | | ||
| pip3 install pdoc nbformat | ||
| pip install -e . -e ./examples | ||
| python - <<EOF | ||
| import glob, nbformat | ||
| for notebook_path in glob.glob('examples/PyMPDATA_examples/*/*.ipynb'): | ||
| with open(notebook_path, encoding="utf8") as fin: | ||
| with open(notebook_path + ".badges.md", 'w') as fout: | ||
| fout.write(nbformat.read(fin, nbformat.NO_CONVERT).cells[0].source) | ||
| EOF | ||
| PDOC_ALLOW_EXEC=1 python -We -m pdoc -o html PyMPDATA examples/PyMPDATA_examples -t docs/templates --math | ||
| - if: ${{ github.ref == 'refs/heads/main' && matrix.platform == 'ubuntu-latest' }} | ||
| uses: JamesIves/[email protected] | ||
| pip install -e .[tests] -e ./examples | ||
| pip install pytest-cov | ||
| pytest --durations=10 -We tests/unit_tests --cov-report=xml --cov=PyMPDATA | ||
| - name: Upload coverage to Codecov | ||
| uses: codecov/codecov-action@v4 | ||
| with: | ||
| BRANCH: pdoc | ||
| FOLDER: html | ||
| CLEAN: true | ||
|
|
||
| zenodo_json: | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| - uses: notiz-dev/github-action-json-property@release | ||
| with: | ||
| path: '.zenodo.json' | ||
| prop_path: 'creators' | ||
| token: ${{ secrets.CODECOV_TOKEN }} | ||
| fail_ci_if_error: true | ||
| verbose: true | ||
|
|
||
| tests: | ||
| timeout-minutes: 120 | ||
| needs: [nojit_and_codecov, pylint, pdoc, precommit, zenodo_json] | ||
| needs: [nojit_and_codecov] | ||
| strategy: | ||
| matrix: | ||
| platform: [ubuntu-latest, macos-13, macos-14, windows-latest] | ||
|
|
@@ -138,7 +116,7 @@ jobs: | |
| - uses: actions/checkout@v2 | ||
| with: | ||
| submodules: recursive | ||
| fetch-depth: 0 | ||
| fetch-depth: 0 | ||
|
|
||
| - uses: actions/[email protected] | ||
| with: | ||
|
|
@@ -152,7 +130,7 @@ jobs: | |
| # https://github.com/numba/numba/issues/6350#issuecomment-728174860 | ||
| - if: startsWith(matrix.platform, 'ubuntu-') | ||
| run: echo NUMBA_THREADING_LAYER=omp >> $GITHUB_ENV | ||
|
|
||
| - env: | ||
| NUMBA_OPT: 1 | ||
| run: | | ||
|
|
@@ -165,7 +143,7 @@ jobs: | |
| python -m pytest --durations=10 -p no:unraisableexception -We -k "test_timing_3d" tests/smoke_tests | ||
| examples: | ||
| needs: [pylint, precommit] | ||
| needs: [nojit_and_codecov] | ||
| strategy: | ||
| matrix: | ||
| platform: [ubuntu-latest, macos-13, macos-14, windows-latest] | ||
|
|
@@ -217,7 +195,7 @@ jobs: | |
| # uses: mxschmitt/action-tmate@v3 | ||
| # with: | ||
| # limit-access-to-actor: true | ||
|
|
||
| - if: ${{ github.ref == 'refs/heads/main' && matrix.platform == 'ubuntu-latest' && matrix.python-version == '3.12'}} | ||
| uses: eine/tip@master | ||
| with: | ||
|
|
@@ -226,58 +204,3 @@ jobs: | |
| /github/home/figures/*.svg | ||
| /github/home/figures/*.gif | ||
| devops: | ||
| runs-on: ubuntu-latest | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| with: | ||
| submodules: recursive | ||
| fetch-depth: 0 # https://github.com/pypa/setuptools_scm/issues/480 | ||
| - run: pip install -r tests/devops_tests/requirements.txt | ||
| - run: pip install -e . -e ./examples | ||
| - env: | ||
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | ||
| run: pytest --durations=10 -v -s -We -p no:unraisableexception -k "not run_notebooks" tests/devops_tests | ||
|
|
||
| dist: | ||
| strategy: | ||
| matrix: | ||
| package-dir: [".", "examples"] | ||
| fail-fast: false | ||
| runs-on: ubuntu-latest | ||
| needs: [tests, examples, devops] | ||
| permissions: | ||
| id-token: write | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| with: | ||
| submodules: recursive | ||
| fetch-depth: 0 # https://github.com/pypa/setuptools_scm/issues/480 | ||
| - uses: actions/[email protected] | ||
| with: | ||
| python-version: "3.10" | ||
|
|
||
| - run: pip install twine build | ||
|
|
||
| - run: | | ||
| unset CI | ||
| cd ${{ matrix.package-dir }} | ||
| python -m build 2>&1 | tee build.log | ||
| exit `fgrep -v "warning: no previously-included files matching" buid.log | fgrep -i warning | wc -l` | ||
| twine check --strict dist/* | ||
| exit `tar tzf dist/*.tar.gz | fgrep ".ipynb" | wc -l` | ||
| cd .. | ||
| - if: github.event_name == 'push' && github.ref == 'refs/heads/main' | ||
| uses: pypa/gh-action-pypi-publish@release/v1.12 | ||
| with: | ||
| attestations: false | ||
| repository_url: https://test.pypi.org/legacy/ | ||
| packages-dir: ${{ matrix.package-dir }}/dist | ||
|
|
||
| - if: startsWith(github.ref, 'refs/tags') | ||
| uses: pypa/gh-action-pypi-publish@release/v1.12 | ||
| with: | ||
| attestations: false | ||
| packages-dir: ${{ matrix.package-dir }}/dist | ||
|
|
||
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