Merge remote-tracking branch 'upstream/main' into pdep8

Author: jorisvandenbossche

.github/workflows/broken-linkcheck.yml

@@ -0,0 +1,38 @@
+name: Linkcheck
+on:
+  schedule:
+  # Run monthly on the 1st day of the month
+    - cron: '0 0 1 * *'
+  pull_request:
+    paths:
+      - ".github/workflows/broken-linkcheck.yml"
+      - "doc/make.py"
+jobs:
+  linkcheck:
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -el {0}
+
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
+
+      - name: Set up Conda
+        uses: ./.github/actions/setup-conda
+
+      - name: Build Pandas
+        uses: ./.github/actions/build_pandas
+
+      - name: Run linkcheck script
+        working-directory: ./doc
+        run: |
+          set -o pipefail
+          python make.py linkcheck | tee linkcheck.txt
+
+      - name: Display broken links
+        if: failure()
+        working-directory: ./doc
+        run: grep broken linkcheck.txt

.github/workflows/comment-commands.yml

@@ -77,7 +77,7 @@ jobs:
           echo 'EOF' >> $GITHUB_ENV
           echo "REGEX=$REGEX" >> $GITHUB_ENV
 
-      - uses: actions/github-script@v6
+      - uses: actions/github-script@v7
         env:
           BENCH_OUTPUT: ${{env.BENCH_OUTPUT}}
           REGEX: ${{env.REGEX}}

.github/workflows/deprecation-tracking-bot.yml

@@ -21,7 +21,7 @@ jobs:
     env:
       DEPRECATION_TRACKER_ISSUE: 50578
     steps:
-    - uses: actions/github-script@v6
+    - uses: actions/github-script@v7
       id: update-deprecation-issue
       with:
         script: |

.github/workflows/unit-tests.yml

@@ -23,10 +23,10 @@ defaults:
 jobs:
   ubuntu:
     runs-on: ubuntu-22.04
-    timeout-minutes: 180
+    timeout-minutes: 90
     strategy:
       matrix:
-        env_file: [actions-39.yaml, actions-310.yaml, actions-311.yaml]
+        env_file: [actions-39.yaml, actions-310.yaml, actions-311.yaml, actions-312.yaml]
         # Prevent the include jobs from overriding other jobs
         pattern: [""]
         include:
@@ -69,6 +69,22 @@ jobs:
             env_file: actions-311.yaml
             pattern: "not slow and not network and not single_cpu"
             pandas_copy_on_write: "1"
+          - name: "Copy-on-Write 3.12"
+            env_file: actions-312.yaml
+            pattern: "not slow and not network and not single_cpu"
+            pandas_copy_on_write: "1"
+          - name: "Copy-on-Write 3.11 (warnings)"
+            env_file: actions-311.yaml
+            pattern: "not slow and not network and not single_cpu"
+            pandas_copy_on_write: "warn"
+          - name: "Copy-on-Write 3.10 (warnings)"
+            env_file: actions-310.yaml
+            pattern: "not slow and not network and not single_cpu"
+            pandas_copy_on_write: "warn"
+          - name: "Copy-on-Write 3.9 (warnings)"
+            env_file: actions-39.yaml
+            pattern: "not slow and not network and not single_cpu"
+            pandas_copy_on_write: "warn"
           - name: "Pypy"
             env_file: actions-pypy-39.yaml
             pattern: "not slow and not network and not single_cpu"
@@ -84,17 +100,18 @@ jobs:
     name: ${{ matrix.name || format('ubuntu-latest {0}', matrix.env_file) }}
     env:
       PATTERN: ${{ matrix.pattern }}
-      EXTRA_APT: ${{ matrix.extra_apt || '' }}
       LANG: ${{ matrix.lang || 'C.UTF-8' }}
       LC_ALL: ${{ matrix.lc_all || '' }}
       PANDAS_COPY_ON_WRITE: ${{ matrix.pandas_copy_on_write || '0' }}
       PANDAS_CI: ${{ matrix.pandas_ci || '1' }}
       TEST_ARGS: ${{ matrix.test_args || '' }}
       PYTEST_WORKERS: 'auto'
       PYTEST_TARGET: ${{ matrix.pytest_target || 'pandas' }}
+      # Clipboard tests
+      QT_QPA_PLATFORM: offscreen
     concurrency:
       # https://github.community/t/concurrecy-not-work-for-push/183068/7
-      group: ${{ github.event_name == 'push' && github.run_number || github.ref }}-${{ matrix.env_file }}-${{ matrix.pattern }}-${{ matrix.extra_apt || '' }}
+      group: ${{ github.event_name == 'push' && github.run_number || github.ref }}-${{ matrix.env_file }}-${{ matrix.pattern }}-${{ matrix.extra_apt || '' }}-${{ matrix.pandas_copy_on_write || '' }}
       cancel-in-progress: true
 
     services:
@@ -141,8 +158,8 @@ jobs:
         fetch-depth: 0
 
     - name: Extra installs
-      # xsel for clipboard tests
-      run: sudo apt-get update && sudo apt-get install -y xsel ${{ env.EXTRA_APT }}
+      run: sudo apt-get update && sudo apt-get install -y ${{ matrix.extra_apt }}
+      if: ${{ matrix.extra_apt }}
 
     - name: Generate extra locales
       # These extra locales will be available for locale.setlocale() calls in tests
@@ -173,11 +190,11 @@ jobs:
       if: ${{ matrix.pattern == '' && (always() && steps.build.outcome == 'success')}}
 
   macos-windows:
-    timeout-minutes: 180
+    timeout-minutes: 90
     strategy:
       matrix:
         os: [macos-latest, windows-latest]
-        env_file: [actions-39.yaml, actions-310.yaml, actions-311.yaml]
+        env_file: [actions-39.yaml, actions-310.yaml, actions-311.yaml, actions-312.yaml]
       fail-fast: false
     runs-on: ${{ matrix.os }}
     name: ${{ format('{0} {1}', matrix.os, matrix.env_file) }}
@@ -236,7 +253,7 @@ jobs:
           . ~/virtualenvs/pandas-dev/bin/activate
           python -m pip install --no-cache-dir -U pip wheel setuptools meson[ninja]==1.2.1 meson-python==0.13.1
           python -m pip install numpy --config-settings=setup-args="-Dallow-noblas=true"
-          python -m pip install --no-cache-dir versioneer[toml] cython 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 versioneer[toml] cython python-dateutil pytz pytest>=7.3.2 pytest-xdist>=2.2.0 hypothesis>=6.46.1
           python -m pip install --no-cache-dir --no-build-isolation -e .
           python -m pip list --no-cache-dir
           export PANDAS_CI=1
@@ -274,7 +291,7 @@ jobs:
           /opt/python/cp311-cp311/bin/python -m venv ~/virtualenvs/pandas-dev
           . ~/virtualenvs/pandas-dev/bin/activate
           python -m pip install --no-cache-dir -U pip wheel setuptools meson-python==0.13.1 meson[ninja]==1.2.1
-          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 versioneer[toml] cython numpy python-dateutil pytz pytest>=7.3.2 pytest-xdist>=2.2.0 hypothesis>=6.46.1
           python -m pip install --no-cache-dir --no-build-isolation -e .
           python -m pip list --no-cache-dir
 
@@ -308,7 +325,7 @@ 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
     defaults:
       run:
         shell: bash -eou pipefail {0}
@@ -318,7 +335,7 @@ jobs:
       matrix:
         os: [ubuntu-22.04, macOS-latest, windows-latest]
 
-    timeout-minutes: 180
+    timeout-minutes: 90
 
     concurrency:
       #https://github.community/t/concurrecy-not-work-for-push/183068/7
@@ -347,7 +364,7 @@ jobs:
           python -m pip install --upgrade pip setuptools wheel meson[ninja]==1.2.1 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 versioneer[toml]
-          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 install python-dateutil pytz tzdata cython hypothesis>=6.46.1 pytest>=7.3.2 pytest-xdist>=2.2.0 pytest-cov
           python -m pip install -ve . --no-build-isolation --no-index --no-deps
           python -m pip list
 

.github/workflows/wheels.yml

@@ -181,7 +181,7 @@ jobs:
         shell: pwsh
         run: |
           $TST_CMD = @"
-          python -m pip install hypothesis>=6.46.1 pytest>=7.3.2 pytest-xdist>=2.2.0 pytest-asyncio>=0.17;
+          python -m pip install hypothesis>=6.46.1 pytest>=7.3.2 pytest-xdist>=2.2.0;
           python -m pip install `$(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`\"\"])`';
           "@

.gitignore

@@ -39,6 +39,7 @@
 .mesonpy-native-file.ini
 MANIFEST
 compile_commands.json
+debug
 .debug
 
 # Python files #
@@ -104,10 +105,11 @@ scikits
 # Generated Sources #
 #####################
 !skts.c
-!np_datetime.c
-!np_datetime_strings.c
 *.c
 *.cpp
+!pandas/_libs/src/**/*.c
+!pandas/_libs/src/**/*.h
+!pandas/_libs/include/**/*.h
 
 # Unit / Performance Testing #
 ##############################

.pre-commit-config.yaml

@@ -20,11 +20,11 @@ ci:
 repos:
 -   repo: https://github.com/hauntsaninja/black-pre-commit-mirror
     # black compiled with mypyc
-    rev: 23.9.1
+    rev: 23.11.0
     hooks:
       - id: black
 -   repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.0.291
+    rev: v0.1.6
     hooks:
     -   id: ruff
         args: [--exit-non-zero-on-fix]
@@ -34,25 +34,25 @@ repos:
         alias: ruff-selected-autofixes
         args: [--select, "ANN001,ANN204", --fix-only, --exit-non-zero-on-fix]
 -   repo: https://github.com/jendrikseipp/vulture
-    rev: 'v2.9.1'
+    rev: 'v2.10'
     hooks:
       - id: vulture
         entry: python scripts/run_vulture.py
         pass_filenames: true
         require_serial: false
 -   repo: https://github.com/codespell-project/codespell
-    rev: v2.2.5
+    rev: v2.2.6
     hooks:
     -   id: codespell
         types_or: [python, rst, markdown, cython, c]
         additional_dependencies: [tomli]
 -   repo: https://github.com/MarcoGorelli/cython-lint
-    rev: v0.15.0
+    rev: v0.16.0
     hooks:
     -   id: cython-lint
     -   id: double-quote-cython-strings
 -   repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.4.0
+    rev: v4.5.0
     hooks:
     -   id: check-ast
     -   id: check-case-conflict
@@ -71,7 +71,7 @@ repos:
         args: [--remove]
     -   id: trailing-whitespace
 -   repo: https://github.com/pylint-dev/pylint
-    rev: v3.0.0b0
+    rev: v3.0.1
     hooks:
     -   id: pylint
         stages: [manual]
@@ -94,7 +94,7 @@ repos:
     hooks:
     -   id: isort
 -   repo: https://github.com/asottile/pyupgrade
-    rev: v3.13.0
+    rev: v3.15.0
     hooks:
     -   id: pyupgrade
         args: [--py39-plus]
@@ -111,11 +111,11 @@ repos:
         types: [text]  # overwrite types: [rst]
         types_or: [python, rst]
 -   repo: https://github.com/sphinx-contrib/sphinx-lint
-    rev: v0.6.8
+    rev: v0.9.0
     hooks:
     - id: sphinx-lint
 -   repo: https://github.com/pre-commit/mirrors-clang-format
-    rev: ea59a72
+    rev: v17.0.6
     hooks:
     - id: clang-format
       files: ^pandas/_libs/src|^pandas/_libs/include
@@ -240,8 +240,9 @@ repos:
             # pytest raises without context
             |\s\ pytest.raises
 
+            # TODO
             # pytest.warns (use tm.assert_produces_warning instead)
-            |pytest\.warns
+            # |pytest\.warns
 
             # os.remove
             |os\.remove

asv_bench/asv.conf.json

@@ -41,7 +41,7 @@
     // pip (with all the conda available packages installed first,
     // followed by the pip installed packages).
     "matrix": {
-        "Cython": ["0.29.33"],
+        "Cython": ["3.0.5"],
         "matplotlib": [],
         "sqlalchemy": [],
         "scipy": [],