Upload 3.13 & free-threaded nightly wheels (#59136)

* Upload free-threaded nightly wheels on Linux and macOS

* Consolidate jobs into one

* Install build dependencies in before-build and pass --no-build-isolation

* Fix {project} placeholder in cibuildwheel config

* Correctly quote echo CIBW_BUILD_FRONTEND command

* Run echo -e

* Add {package} to before-build

* Include cibw script in sdist & add matrix value for build frontend

* Change manifest and gitattributes

* Change gitattributes

* Install verioneer in before-build

* Add cibw_before_test to install nightly NumPy

* Expand before-test to musl

* Better comments plus always run before-build/before-test on 3.13

* Add --no-build-isolation in 3.13 as well

* Install nightly numpy before windows tests

* Address feedback; add todo for NumPy nightly and move default outside matrix

* Set build_frontend to 'build' in pyodide build

---------

Co-authored-by: Matthew Roeschke <[email protected]>

Author: lysnikolaou

.gitattributes

@@ -68,7 +68,7 @@ ci export-ignore
 doc export-ignore
 gitpod export-ignore
 MANIFEST.in export-ignore
-scripts export-ignore
+scripts/** export-ignore
 typings export-ignore
 web export-ignore
 CITATION.cff export-ignore
@@ -82,3 +82,7 @@ setup.py export-ignore
 # csv_dir_path fixture checks the existence of the directory
 # exclude the whole directory to avoid running related tests in sdist
 pandas/tests/io/parser/data export-ignore
+
+# Include cibw script in sdist since it's needed for building wheels
+scripts/cibw_before_build.sh -export-ignore
+scripts/cibw_before_test.sh -export-ignore

.github/workflows/wheels.yml

@@ -99,14 +99,25 @@ jobs:
         - [macos-14, macosx_arm64]
         - [windows-2022, win_amd64]
         # TODO: support PyPy?
-        python: [["cp310", "3.10"], ["cp311", "3.11"], ["cp312", "3.12"]]
-
+        python: [["cp310", "3.10"], ["cp311", "3.11"], ["cp312", "3.12"], ["cp313", "3.13"], ["cp313t", "3.13"]]
+        include:
+        # TODO: Remove this plus installing build deps in cibw_before_build.sh
+        # and test deps in cibw_before_test.sh after pandas can be built with a released NumPy/Cython
+        - python: ["cp313", "3.13"]
+          cibw_build_frontend: 'pip; args: --no-build-isolation'
+        - python: ["cp313t", "3.13"]
+          cibw_build_frontend: 'pip; args: --no-build-isolation'
         # Build Pyodide wheels and upload them to Anaconda.org
         # NOTE: this job is similar to the one in unit-tests.yml except for the fact
         # that it uses cibuildwheel instead of a standard Pyodide xbuildenv setup.
-        include:
-          - buildplat: [ubuntu-22.04, pyodide_wasm32]
-            python: ["cp312", "3.12"]
+        - buildplat: [ubuntu-22.04, pyodide_wasm32]
+          python: ["cp312", "3.12"]
+          cibw_build_frontend: 'build'
+        # TODO: Build free-threaded wheels for Windows
+        exclude:
+        - buildplat: [windows-2022, win_amd64]
+          python: ["cp313t", "3.13"]
+
     env:
       IS_PUSH: ${{ github.event_name == 'push' && startsWith(github.ref, 'refs/tags/v') }}
       IS_SCHEDULE_DISPATCH: ${{ github.event_name == 'schedule' || github.event_name == 'workflow_dispatch' }}
@@ -153,6 +164,7 @@ jobs:
         env:
           CIBW_PRERELEASE_PYTHONS: True
           CIBW_BUILD: ${{ matrix.python[0] }}-${{ matrix.buildplat[1] }}
+          CIBW_BUILD_FRONTEND: ${{ matrix.cibw_build_frontend || 'pip' }}
           CIBW_PLATFORM: ${{ matrix.buildplat[1] == 'pyodide_wasm32' && 'pyodide' || 'auto' }}
 
       - name: Set up Python
@@ -176,15 +188,17 @@ jobs:
       - name: Test Windows Wheels
         if: ${{ matrix.buildplat[1] == 'win_amd64' }}
         shell: pwsh
+        # TODO: Remove NumPy nightly install when there's a 3.13 wheel on PyPI
         run: |
           $TST_CMD = @"
           python -m pip install hypothesis>=6.84.0 pytest>=7.3.2 pytest-xdist>=3.4.0;
+          ${{ matrix.python[1] == '3.13' && 'python -m pip install -i https://pypi.anaconda.org/scientific-python-nightly-wheels/simple numpy;' }}
           python -m pip install `$(Get-Item pandas\wheelhouse\*.whl);
           python -c `'import pandas as pd; pd.test(extra_args=[`\"--no-strict-data-files`\", `\"-m not clipboard and not single_cpu and not slow and not network and not db`\"])`';
           "@
           # add rc to the end of the image name if the Python version is unreleased
-          docker pull python:${{ matrix.python[1] == '3.12' && '3.12-rc' || format('{0}-windowsservercore', matrix.python[1]) }}
-          docker run --env PANDAS_CI='1' -v ${PWD}:C:\pandas python:${{ matrix.python[1] == '3.12' && '3.12-rc' || format('{0}-windowsservercore', matrix.python[1]) }} powershell -Command $TST_CMD
+          docker pull python:${{ matrix.python[1] == '3.13' && '3.13-rc' || format('{0}-windowsservercore', matrix.python[1]) }}
+          docker run --env PANDAS_CI='1' -v ${PWD}:C:\pandas python:${{ matrix.python[1] == '3.13' && '3.13-rc' || format('{0}-windowsservercore', matrix.python[1]) }} powershell -Command $TST_CMD
 
       - uses: actions/upload-artifact@v4
         with:

MANIFEST.in

@@ -62,3 +62,7 @@ prune pandas/tests/io/parser/data
 # Selectively re-add *.cxx files that were excluded above
 graft pandas/_libs/src
 graft pandas/_libs/include
+
+# Include cibw script in sdist since it's needed for building wheels
+include scripts/cibw_before_build.sh
+include scripts/cibw_before_test.sh

pyproject.toml

@@ -154,14 +154,17 @@ test-command = """
   pd.test(extra_args=["-m not clipboard and not single_cpu and not slow and not network and not db", "-n 2", "--no-strict-data-files"]); \
   pd.test(extra_args=["-m not clipboard and single_cpu and not slow and not network and not db", "--no-strict-data-files"]);' \
   """
+free-threaded-support = true
+before-build = "bash {package}/scripts/cibw_before_build.sh"
+before-test = "bash {package}/scripts/cibw_before_test.sh"
 
 [tool.cibuildwheel.windows]
-before-build = "pip install delvewheel"
+before-build = "pip install delvewheel && bash {package}/scripts/cibw_before_build.sh"
 repair-wheel-command = "delvewheel repair -w {dest_dir} {wheel}"
 
 [[tool.cibuildwheel.overrides]]
 select = "*-musllinux*"
-before-test = "apk update && apk add musl-locales"
+before-test = "apk update && apk add musl-locales && bash {package}/scripts/cibw_before_test.sh"
 
 [[tool.cibuildwheel.overrides]]
 select = "*-win*"

scripts/cibw_before_build.sh

@@ -0,0 +1,9 @@
+# TODO: Delete when there's PyPI NumPy/Cython releases the support Python 3.13.
+# If free-threading support is not included in those releases, this script will have
+# to whether this runs for a free-threaded build instead.
+PYTHON_VERSION="$(python -c "import sys; print(f'{sys.version_info.major}{sys.version_info.minor}')")"
+if [[ $PYTHON_VERSION == "313" ]]; then
+    python -m pip install -U pip
+    python -m pip install -i https://pypi.anaconda.org/scientific-python-nightly-wheels/simple numpy cython
+    python -m pip install ninja meson-python versioneer[toml]
+fi

scripts/cibw_before_test.sh

@@ -0,0 +1,8 @@
+# TODO: Delete when there's PyPI NumPy/Cython releases the support Python 3.13.
+# If free-threading support is not included in those releases, this script will have
+# to whether this runs for a free-threaded build instead.
+PYTHON_VERSION="$(python -c "import sys; print(f'{sys.version_info.major}{sys.version_info.minor}')")"
+if [[ $PYTHON_VERSION == "313" ]]; then
+    python -m pip install -U pip
+    python -m pip install -i https://pypi.anaconda.org/scientific-python-nightly-wheels/simple numpy
+fi