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benjefferybenjeffery
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Update actions versions
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‎.github/workflows/docs.yml‎

Lines changed: 2 additions & 2 deletions
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@@ -30,13 +30,13 @@ jobs:
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- uses: actions/checkout@v4.2.2
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- name: Setup Conda
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uses: conda-incubator/setup-miniconda@v3.1.0
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uses: conda-incubator/setup-miniconda@v3.1.1
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with:
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miniforge-version: latest
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activate-environment: tskit-docs-env
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- name: Cache Conda env
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uses: actions/cache@v4.2.0
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uses: actions/cache@v4.2.2
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with:
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path: ${{ env.CONDA }}/envs
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key: conda-${{ runner.os }}--${{ runner.arch }}--${{ hashFiles(env.REQUIREMENTS) }}-${{ env.CACHE_NUMBER }}

‎.github/workflows/release.yml‎

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -12,7 +12,7 @@ jobs:
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- name: Checkout
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uses: actions/checkout@v4.2.2
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- name: Set up Python
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uses: actions/setup-python@v5.3.0
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uses: actions/setup-python@v5.4.0
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with:
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python-version: '3.12'
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- name: Install dependencies and set up venv
@@ -39,7 +39,7 @@ jobs:
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run:
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echo ::set-output name=VERSION::$(echo $GITHUB_REF | cut -d / -f 3)
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- name: C Release
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uses: softprops/action-gh-release@v2.2.0
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uses: softprops/action-gh-release@v2.2.1
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if: startsWith(github.ref, 'refs/tags/') && contains(github.event.ref, 'C_')
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with:
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name: C API ${{ steps.get_version.outputs.VERSION }}
@@ -48,7 +48,7 @@ jobs:
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fail_on_unmatched_files: True
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files: build-gcc/meson-dist/*
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- name: Python Release
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uses: softprops/action-gh-release@v2.2.0
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uses: softprops/action-gh-release@v2.2.1
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if: startsWith(github.ref, 'refs/tags/') && !contains(github.event.ref, 'C_')
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with:
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name: Python ${{ steps.get_version.outputs.VERSION }}

‎.github/workflows/tests.yml‎

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Original file line numberDiff line numberDiff line change
@@ -15,7 +15,7 @@ jobs:
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with:
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access_token: ${{ github.token }}
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- uses: actions/checkout@v4.2.2
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- uses: actions/setup-python@v5.3.0
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- uses: actions/setup-python@v5.4.0
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with:
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python-version: '3.10'
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- name: install clang-format
@@ -33,7 +33,7 @@ jobs:
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- name: Cancel Previous Runs
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uses: styfle/cancel-workflow-action@0.12.1
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- uses: actions/checkout@v4.2.2
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- uses: actions/setup-python@v5.3.0
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- uses: actions/setup-python@v5.4.0
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with:
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python-version: '3.11'
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cache: 'pip'
@@ -50,7 +50,7 @@ jobs:
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pip uninstall -y tskit
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python run.py
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- name: Upload Results
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uses: actions/upload-artifact@v4.4.3
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uses: actions/upload-artifact@v4.6.1
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with:
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name: benchmark-results
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path: python/benchmark
@@ -82,13 +82,13 @@ jobs:
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- name: Cache conda and dependencies
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id: cache
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uses: actions/cache@v4.2.0
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uses: actions/cache@v4.2.2
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with:
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path: ${{ env.CONDA }}/envs
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key: ${{ runner.os }}-${{ runner.arch }}-${{ matrix.python}}-conda-v1-${{ hashFiles('python/requirements/CI-tests-conda/requirements.txt') }}-${{ hashFiles('python/requirements/CI-tests-pip/requirements.txt') }}
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- name: Install Conda
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uses: conda-incubator/setup-miniconda@v3.1.0
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uses: conda-incubator/setup-miniconda@v3.1.1
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if: steps.cache.outputs.cache-hit != 'true'
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with:
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activate-environment: anaconda-client-env
@@ -141,7 +141,7 @@ jobs:
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python -m pytest -x --cov=tskit --cov-report=xml --cov-branch -n2 --durations=20 tests
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- name: Upload coverage to Codecov
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uses: codecov/codecov-action@v5.1.1
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uses: codecov/codecov-action@v5.4.0
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with:
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token: ${{ secrets.CODECOV_TOKEN }}
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working-directory: python
@@ -171,7 +171,7 @@ jobs:
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uses: actions/checkout@v4.2.2
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- name: Setup MSYS2 ${{matrix.sys}}
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uses: msys2/setup-msys2@v2.26.0
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uses: msys2/setup-msys2@v2.27.0
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with:
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msystem: ${{matrix.sys}}
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update: true

‎.github/workflows/wheels.yml‎

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Original file line numberDiff line numberDiff line change
@@ -20,7 +20,7 @@ jobs:
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- name: Checkout
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uses: actions/checkout@v4.2.2
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- name: Set up Python ${{ matrix.python }}
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uses: actions/setup-python@v5.3.0
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uses: actions/setup-python@v5.4.0
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with:
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python-version: ${{ matrix.python }}
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- name: Install deps
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pip install delocate
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delocate-wheel -v dist/*.whl
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- name: Upload Wheels
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uses: actions/upload-artifact@v4.4.3
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uses: actions/upload-artifact@v4.6.1
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with:
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name: osx-wheel-${{ matrix.python }}
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path: python/dist
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cp ../c/tskit.h lib/.
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${PYTHON} -m build --wheel
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- name: Upload Wheels
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uses: actions/upload-artifact@v4.4.3
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uses: actions/upload-artifact@v4.6.1
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with:
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name: win-wheel-${{ matrix.python }}-${{ matrix.wordsize }}
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path: python/dist
@@ -86,7 +86,7 @@ jobs:
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uses: actions/checkout@v4.2.2
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- name: Set up Python 3.9
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uses: actions/setup-python@v5.3.0
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uses: actions/setup-python@v5.4.0
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with:
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python-version: 3.9
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@@ -98,7 +98,7 @@ jobs:
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python -m build --sdist
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- name: Upload sdist
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uses: actions/upload-artifact@v4.4.3
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uses: actions/upload-artifact@v4.6.1
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with:
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name: sdist
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path: python/dist
@@ -109,7 +109,7 @@ jobs:
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docker run --rm -v `pwd`:/project -w /project quay.io/pypa/manylinux2014_x86_64 bash .github/workflows/docker/buildwheel.sh
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- name: Upload Wheels
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uses: actions/upload-artifact@v4.4.3
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uses: actions/upload-artifact@v4.6.1
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with:
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name: linux-wheels
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path: python/dist/wheelhouse
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python: [3.9, "3.10", 3.11, 3.12]
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steps:
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- name: Download wheels
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uses: actions/download-artifact@v4.1.8
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uses: actions/download-artifact@v4.2.0
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with:
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name: osx-wheel-${{ matrix.python }}
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- name: Set up Python ${{ matrix.python }}
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uses: actions/setup-python@v5.3.0
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uses: actions/setup-python@v5.4.0
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with:
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python-version: ${{ matrix.python }}
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- name: Install wheel and test
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wordsize: [64]
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steps:
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- name: Download wheels
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uses: actions/download-artifact@v4.1.8
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uses: actions/download-artifact@v4.2.0
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with:
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name: win-wheel-${{ matrix.python }}-${{ matrix.wordsize }}
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- name: Set up Python ${{ matrix.python }}
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uses: actions/setup-python@v5.3.0
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uses: actions/setup-python@v5.4.0
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with:
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python-version: ${{ matrix.python }}
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- name: Install wheel and test
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wheel: cp312
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steps:
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- name: Download wheels
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uses: actions/download-artifact@v4.1.8
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uses: actions/download-artifact@v4.2.0
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with:
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name: linux-wheels
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- name: Set up Python
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uses: actions/setup-python@v5.3.0
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uses: actions/setup-python@v5.4.0
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with:
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python-version: ${{ matrix.python }}
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- name: Install wheel and test
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id-token: write
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steps:
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- name: Download all
204-
uses: actions/download-artifact@v4.1.8
204+
uses: actions/download-artifact@v4.2.0
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- name: Move to dist
206206
run: |
207207
mkdir dist
208208
cp */*.{whl,gz} dist/.
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- name: Publish distribution to Test PyPI
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if: github.event_name == 'push' && startsWith(github.event.ref, 'refs/tags') && !contains(github.event.ref, 'C_')
211-
uses: pypa/gh-action-pypi-publish@v1.12.3
211+
uses: pypa/gh-action-pypi-publish@v1.12.4
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with:
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repository_url: https://test.pypi.org/legacy/
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- name: Publish distribution to PRODUCTION PyPI
215215
if: github.event_name == 'release' && !startsWith(github.event.release.tag_name, 'C_')
216-
uses: pypa/gh-action-pypi-publish@v1.12.3
216+
uses: pypa/gh-action-pypi-publish@v1.12.4

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