Merge branch 'main' into fix-reduction-metadata

Author: mroeschke

.circleci/config.yml

@@ -47,8 +47,8 @@ jobs:
       - run:
           name: Build aarch64 wheels
           command: |
-            pip3 install cibuildwheel==2.12.1
-            cibuildwheel --output-dir wheelhouse
+            pip3 install cibuildwheel==2.14.1
+            cibuildwheel --prerelease-pythons --output-dir wheelhouse
           environment:
             CIBW_BUILD: << parameters.cibw-build >>
 
@@ -91,4 +91,5 @@ workflows:
               only: /^v.*/
           matrix:
             parameters:
-              cibw-build: ["cp39-manylinux_aarch64", "cp310-manylinux_aarch64", "cp311-manylinux_aarch64"]
+              # TODO: Enable Python 3.12 wheels when numpy releases a version that supports Python 3.12
+              cibw-build: ["cp39-manylinux_aarch64", "cp310-manylinux_aarch64", "cp311-manylinux_aarch64"]#, "cp312-manylinux_aarch64"]

.gitattributes

@@ -14,3 +14,71 @@
 *.xls binary
 *.xlsx binary
 pandas/_version.py export-subst
+
+
+*.bz2 export-ignore
+*.csv export-ignore
+*.data export-ignore
+*.dta export-ignore
+*.feather export-ignore
+*.tar export-ignore
+*.gz export-ignore
+*.h5 export-ignore
+*.html export-ignore
+*.json export-ignore
+*.jsonl export-ignore
+*.kml export-ignore
+*.msgpack export-ignore
+*.pdf export-ignore
+*.parquet export-ignore
+*.pickle export-ignore
+*.pkl export-ignore
+*.png export-ignore
+*.pptx export-ignore
+*.ods export-ignore
+*.odt export-ignore
+*.orc export-ignore
+*.sas7bdat export-ignore
+*.sav export-ignore
+*.so export-ignore
+*.txt export-ignore
+*.xls export-ignore
+*.xlsb export-ignore
+*.xlsm export-ignore
+*.xlsx export-ignore
+*.xpt export-ignore
+*.cpt export-ignore
+*.xml export-ignore
+*.xsl export-ignore
+*.xz export-ignore
+*.zip export-ignore
+*.zst export-ignore
+*~ export-ignore
+.DS_Store export-ignore
+.git* export-ignore
+
+*.py[ocd] export-ignore
+*.pxi export-ignore
+
+# Ignoring stuff from the top level
+.circleci export-ignore
+.github export-ignore
+asv_bench export-ignore
+ci export-ignore
+doc export-ignore
+gitpod export-ignore
+MANIFEST.in export-ignore
+scripts export-ignore
+typings export-ignore
+web export-ignore
+CITATION.cff export-ignore
+codecov.yml export-ignore
+Dockerfile export-ignore
+environment.yml export-ignore
+setup.py export-ignore
+
+
+# GH 39321
+# 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

.github/CODEOWNERS

@@ -9,6 +9,7 @@ web/                              @datapythonista
 
 # docs
 doc/cheatsheet                    @Dr-Irv
+doc/source/development            @noatamir
 
 # pandas
 pandas/_libs/                     @WillAyd

.github/actions/build_pandas/action.yml

@@ -12,12 +12,13 @@ runs:
       run: |
         micromamba info
         micromamba list
+        pip list --pre
       shell: bash -el {0}
 
     - name: Uninstall existing Pandas installation
       run: |
-        if pip list | grep -q ^pandas; then
-          pip uninstall -y pandas || true
+        if pip show pandas 1>/dev/null; then
+          pip uninstall -y pandas
         fi
       shell: bash -el {0}
 

.github/workflows/autoupdate-pre-commit-config.yml

@@ -0,0 +1,32 @@
+name: Purge caches once a week
+on:
+  schedule:
+    # 4:10 UTC on Sunday
+    - cron: "10 4 * * 0"
+
+jobs:
+  cleanup:
+    runs-on: ubuntu-latest
+    if: github.repository_owner == 'pandas-dev'
+    permissions:
+      actions: write
+    steps:
+      - name: Clean Cache
+        run: |
+          gh extension install actions/gh-actions-cache
+
+          REPO=${{ github.repository }}
+
+          echo "Fetching list of cache key"
+          allCaches=$(gh actions-cache list -L 100 -R $REPO | cut -f 1 )
+
+          ## Setting this to not fail the workflow while deleting cache keys.
+          set +e
+          echo "Deleting caches..."
+          for cacheKey in $allCaches
+          do
+              gh actions-cache delete $cacheKey -R $REPO --confirm
+          done
+          echo "Done"
+        env:
+          GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}

.github/workflows/cache-cleanup-weekly.yml

@@ -17,28 +17,8 @@ env:
 permissions:
   contents: read
 
+# pre-commit run by https://pre-commit.ci/
 jobs:
-  pre_commit:
-    name: pre-commit
-    runs-on: ubuntu-22.04
-    concurrency:
-      # https://github.community/t/concurrecy-not-work-for-push/183068/7
-      group: ${{ github.event_name == 'push' && github.run_number || github.ref }}-pre-commit
-      cancel-in-progress: true
-    steps:
-    - name: Checkout
-      uses: actions/checkout@v3
-
-    - name: Install Python
-      uses: actions/setup-python@v4
-      with:
-        python-version: '3.9'
-
-    - name: Run pre-commit
-      uses: pre-commit/[email protected]
-      with:
-        extra_args: --verbose --all-files
-
   docstring_typing_manual_hooks:
     name: Docstring validation, typing, and other manual pre-commit hooks
     runs-on: ubuntu-22.04

.github/workflows/code-checks.yml

@@ -103,7 +103,7 @@ jobs:
 
     services:
       mysql:
-        image: mysql
+        image: mysql:8.0.33
         env:
           MYSQL_ALLOW_EMPTY_PASSWORD: yes
           MYSQL_DATABASE: pandas
@@ -116,8 +116,9 @@ jobs:
           - 3306:3306
 
       postgres:
-        image: postgres
+        image: postgres:13
         env:
+          PGUSER: postgres
           POSTGRES_USER: postgres
           POSTGRES_PASSWORD: postgres
           POSTGRES_DB: pandas
@@ -130,7 +131,7 @@ jobs:
           - 5432:5432
 
       moto:
-        image: motoserver/moto:4.1.12
+        image: motoserver/moto:4.1.13
         env:
           AWS_ACCESS_KEY_ID: foobar_key
           AWS_SECRET_ACCESS_KEY: foobar_secret
@@ -173,7 +174,7 @@ jobs:
       uses: ./.github/actions/run-tests
       env:
         PATTERN: 'single_cpu'
-        PYTEST_WORKERS: 1
+        PYTEST_WORKERS: 0
       if: ${{ matrix.pattern == '' && (always() && steps.build.outcome == 'success')}}
 
   macos-windows:
@@ -193,8 +194,8 @@ jobs:
       PANDAS_CI: 1
       PYTEST_TARGET: pandas
       PATTERN: "not slow and not db and not network and not single_cpu"
-      # GH 47443: PYTEST_WORKERS > 1 crashes Windows builds with memory related errors
-      PYTEST_WORKERS: ${{ matrix.os == 'macos-latest' && 'auto' || '1' }}
+      # GH 47443: PYTEST_WORKERS > 0 crashes Windows builds with memory related errors
+      PYTEST_WORKERS: ${{ matrix.os == 'macos-latest' && 'auto' || '0' }}
 
     steps:
       - name: Checkout
@@ -237,7 +238,7 @@ jobs:
         run: |
           /opt/python/cp311-cp311/bin/python -m venv ~/virtualenvs/pandas-dev
           . ~/virtualenvs/pandas-dev/bin/activate
-          python -m pip install -U pip wheel setuptools meson[ninja]==1.0.1 meson-python==0.13.1
+          python -m pip install --no-cache-dir -U pip wheel setuptools meson[ninja]==1.0.1 meson-python==0.13.1
           python -m pip install --no-cache-dir versioneer[toml] cython numpy python-dateutil pytz pytest>=7.3.2 pytest-xdist>=2.2.0 pytest-asyncio>=0.17 hypothesis>=6.46.1
           python -m pip install --no-cache-dir --no-build-isolation -e .
           python -m pip list --no-cache-dir
@@ -275,7 +276,7 @@ jobs:
         run: |
           /opt/python/cp311-cp311/bin/python -m venv ~/virtualenvs/pandas-dev
           . ~/virtualenvs/pandas-dev/bin/activate
-          python -m pip install -U pip wheel setuptools meson-python==0.13.1 meson[ninja]==1.0.1
+          python -m pip install --no-cache-dir -U pip wheel setuptools meson-python==0.13.1 meson[ninja]==1.0.1
           python -m pip install --no-cache-dir versioneer[toml] cython numpy python-dateutil pytz pytest>=7.3.2 pytest-xdist>=2.2.0 pytest-asyncio>=0.17 hypothesis>=6.46.1
           python -m pip install --no-cache-dir --no-build-isolation -e .
           python -m pip list --no-cache-dir
@@ -310,12 +311,16 @@ jobs:
     #    To freeze this file, uncomment out the ``if: false`` condition, and migrate the jobs
     #    to the corresponding posix/windows-macos/sdist etc. workflows.
     # Feel free to modify this comment as necessary.
-    if: false # Uncomment this to freeze the workflow, comment it to unfreeze
+    #if: false # Uncomment this to freeze the workflow, comment it to unfreeze
     runs-on: ${{ matrix.os }}
     strategy:
       fail-fast: false
       matrix:
-        os: [ubuntu-22.04, macOS-latest, windows-latest]
+        # TODO: Disable macOS for now, Github Actions bug where python is not
+        # symlinked correctly to 3.12
+        # xref https://github.com/actions/setup-python/issues/701
+        #os: [ubuntu-22.04, macOS-latest, windows-latest]
+        os: [ubuntu-22.04, windows-latest]
 
     timeout-minutes: 180
 
@@ -339,21 +344,21 @@ jobs:
       - name: Set up Python Dev Version
         uses: actions/setup-python@v4
         with:
-          python-version: '3.11-dev'
+          python-version: '3.12-dev'
 
       - name: Install dependencies
         run: |
           python --version
-          python -m pip install --upgrade pip setuptools wheel
+          python -m pip install --upgrade pip setuptools wheel meson[ninja]==1.0.1 meson-python==0.13.1
           python -m pip install --pre --extra-index-url https://pypi.anaconda.org/scientific-python-nightly-wheels/simple numpy
           python -m pip install git+https://github.com/nedbat/coveragepy.git
           python -m pip install versioneer[toml]
-          python -m pip install python-dateutil pytz cython hypothesis>=6.46.1 pytest>=7.3.2 pytest-xdist>=2.2.0 pytest-cov pytest-asyncio>=0.17
+          python -m pip install python-dateutil pytz tzdata cython hypothesis>=6.46.1 pytest>=7.3.2 pytest-xdist>=2.2.0 pytest-cov pytest-asyncio>=0.17
           python -m pip list
 
       - name: Build Pandas
         run: |
-          python -m pip install -e . --no-build-isolation --no-index
+          python -m pip install -ve . --no-build-isolation --no-index
 
       - name: Build Version
         run: |

.github/workflows/unit-tests.yml

@@ -93,7 +93,8 @@ jobs:
         - [macos-12, macosx_*]
         - [windows-2022, win_amd64]
         # TODO: support PyPy?
-        python: [["cp39", "3.9"], ["cp310", "3.10"], ["cp311", "3.11"]]
+        # TODO: Enable Python 3.12 wheels when numpy releases a version that supports Python 3.12
+        python: [["cp39", "3.9"], ["cp310", "3.10"], ["cp311", "3.11"]]#, ["cp312", "3.12"]]
     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' }}
@@ -103,20 +104,23 @@ jobs:
         with:
           fetch-depth: 0
 
+      # We need to build wheels from the sdist since the sdist
+      # removes unnecessary files from the release
       - name: Download sdist
         uses: actions/download-artifact@v3
         with:
           name: sdist
           path: ./dist
 
       - name: Build wheels
-        uses: pypa/cibuildwheel@v2.13.1
+        uses: pypa/cibuildwheel@v2.14.1
         # TODO: Build wheels from sdist again
         # There's some sort of weird race condition?
         # within Github that makes the sdist be missing files
-        #with:
-        #  package-dir: ./dist/${{ needs.build_sdist.outputs.sdist_file }}
+        with:
+         package-dir: ./dist/${{ needs.build_sdist.outputs.sdist_file }}
         env:
+          CIBW_PRERELEASE_PYTHONS: True
           CIBW_BUILD: ${{ matrix.python[0] }}-${{ matrix.buildplat[1] }}
 
       - name: Set up Python
@@ -142,7 +146,7 @@ jobs:
           $TST_CMD = @"
           python -m pip install pytz six numpy python-dateutil tzdata>=2022.1 hypothesis>=6.46.1 pytest>=7.3.2 pytest-xdist>=2.2.0 pytest-asyncio>=0.17;
           python -m pip install --find-links=pandas\wheelhouse --no-index pandas;
-          python -c `'import pandas as pd; pd.test()`';
+          python -c `'import pandas as pd; pd.test(extra_args=[\"`\"--no-strict-data-files`\"\", \"`\"-m not clipboard and not single_cpu and not slow and not network and not db`\"\"])`';
           "@
           docker pull python:${{ matrix.python[1] }}-windowsservercore
           docker run --env PANDAS_CI='1' -v ${PWD}:C:\pandas python:${{ matrix.python[1] }}-windowsservercore powershell -Command $TST_CMD