Merge branch 'main' into explode-method-extension-array

.circleci/config.yml

@@ -48,7 +48,7 @@ jobs:
           name: Build aarch64 wheels
           no_output_timeout: 30m # Sometimes the tests won't generate any output, make sure the job doesn't get killed by that
           command: |
-            pip3 install cibuildwheel==2.14.1
+            pip3 install cibuildwheel==2.15.0
             cibuildwheel --prerelease-pythons --output-dir wheelhouse
           environment:
             CIBW_BUILD: << parameters.cibw-build >>
@@ -92,5 +92,4 @@ workflows:
               only: /^v.*/
           matrix:
             parameters:
-              # 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"]
+              cibw-build: ["cp39-manylinux_aarch64", "cp310-manylinux_aarch64", "cp311-manylinux_aarch64", "cp312-manylinux_aarch64"]

.github/workflows/code-checks.yml

@@ -33,7 +33,7 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@v3
+      uses: actions/checkout@v4
       with:
         fetch-depth: 0
 
@@ -109,7 +109,7 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@v3
+      uses: actions/checkout@v4
       with:
         fetch-depth: 0
 
@@ -143,7 +143,7 @@ jobs:
         run: docker image prune -f
 
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
@@ -164,7 +164,7 @@ jobs:
 
     steps:
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           fetch-depth: 0
 

.github/workflows/codeql.yml

@@ -27,7 +27,7 @@ jobs:
           - python
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
       - uses: github/codeql-action/init@v2
         with:
           languages: ${{ matrix.language }}

.github/workflows/comment-commands.yml

@@ -51,7 +51,7 @@ jobs:
 
     steps:
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           fetch-depth: 0
 

.github/workflows/docbuild-and-upload.yml

@@ -36,7 +36,7 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@v3
+      uses: actions/checkout@v4
       with:
         fetch-depth: 0
 

.github/workflows/package-checks.yml

@@ -34,7 +34,7 @@ jobs:
 
     steps:
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
@@ -62,7 +62,7 @@ jobs:
       cancel-in-progress: true
     steps:
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           fetch-depth: 0
 

.github/workflows/unit-tests.yml

@@ -136,7 +136,7 @@ jobs:
 
     steps:
     - name: Checkout
-      uses: actions/checkout@v3
+      uses: actions/checkout@v4
       with:
         fetch-depth: 0
 
@@ -194,7 +194,7 @@ jobs:
 
     steps:
       - name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
@@ -233,8 +233,8 @@ jobs:
         run: |
           /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[ninja]==1.0.1 meson-python==0.13.1
-          python -m pip install --no-cache-dir versioneer[toml] "cython<3.0.1" 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 -U pip wheel setuptools meson[ninja]==1.2.1 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
           export PANDAS_CI=1
@@ -271,8 +271,8 @@ jobs:
         run: |
           /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]==1.0.1
-          python -m pip install --no-cache-dir versioneer[toml] "cython<3.0.1" 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 -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 --no-build-isolation -e .
           python -m pip list --no-cache-dir
 
@@ -330,7 +330,7 @@ jobs:
       PYTEST_TARGET: pandas
 
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
@@ -342,10 +342,10 @@ jobs:
       - name: Build Environment
         run: |
           python --version
-          python -m pip install --upgrade pip setuptools wheel meson[ninja]==1.0.1 meson-python==0.13.1
+          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<3.0.1" 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 install -ve . --no-build-isolation --no-index
           python -m pip list
 

.github/workflows/wheels.yml

@@ -48,7 +48,7 @@ jobs:
       sdist_file: ${{ steps.save-path.outputs.sdist_name }}
     steps:
       - name: Checkout pandas
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
@@ -97,14 +97,13 @@ jobs:
         - [macos-12, macosx_*]
         - [windows-2022, win_amd64]
         # TODO: support PyPy?
-        # 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"]]
+        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' }}
     steps:
       - name: Checkout pandas
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
         with:
           fetch-depth: 0
 
@@ -150,8 +149,10 @@ jobs:
         uses: mamba-org/setup-micromamba@v1
         with:
           environment-name: wheel-env
+          # Use a fixed Python, since we might have an unreleased Python not
+          # yet present on conda-forge
           create-args: >-
-            python=${{ matrix.python[1] }}
+            python=3.11
             anaconda-client
             wheel
           cache-downloads: true
@@ -167,12 +168,13 @@ jobs:
         shell: pwsh
         run: |
           $TST_CMD = @"
-          python -m pip install pytz six numpy python-dateutil tzdata>=2022.1 hypothesis>=6.46.1 pytest>=7.3.2 pytest-xdist>=2.2.0 pytest-asyncio>=0.17;
-          python -m pip install --find-links=pandas\wheelhouse --no-index pandas;
+          python -m pip install hypothesis>=6.46.1 pytest>=7.3.2 pytest-xdist>=2.2.0 pytest-asyncio>=0.17;
+          python -m pip install `$(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`\"\"])`';
           "@
-          docker pull python:${{ matrix.python[1] }}-windowsservercore
-          docker run --env PANDAS_CI='1' -v ${PWD}:C:\pandas python:${{ matrix.python[1] }}-windowsservercore powershell -Command $TST_CMD
+          # add rc to the end of the image name if the Python version is unreleased
+          docker pull python:${{ 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
 
       - uses: actions/upload-artifact@v3
         with:

.pre-commit-config.yaml

@@ -24,7 +24,7 @@ repos:
     hooks:
       - id: black
 -   repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.0.285
+    rev: v0.0.287
     hooks:
     -   id: ruff
         args: [--exit-non-zero-on-fix]
@@ -34,7 +34,7 @@ repos:
         alias: ruff-selected-autofixes
         args: [--select, "ANN001,ANN204", --fix-only, --exit-non-zero-on-fix]
 -   repo: https://github.com/jendrikseipp/vulture
-    rev: 'v2.7'
+    rev: 'v2.9.1'
     hooks:
       - id: vulture
         entry: python scripts/run_vulture.py
@@ -84,7 +84,7 @@ repos:
             '--filter=-readability/casting,-runtime/int,-build/include_subdir,-readability/fn_size'
         ]
 -   repo: https://github.com/pylint-dev/pylint
-    rev: v3.0.0a6
+    rev: v3.0.0a7
     hooks:
     -   id: pylint
         stages: [manual]
@@ -124,7 +124,7 @@ repos:
         types: [text]  # overwrite types: [rst]
         types_or: [python, rst]
 -   repo: https://github.com/sphinx-contrib/sphinx-lint
-    rev: v0.6.7
+    rev: v0.6.8
     hooks:
     - id: sphinx-lint
 -   repo: local

asv_bench/benchmarks/array.py

@@ -90,7 +90,7 @@ def time_setitem(self, multiple_chunks):
             self.array[i] = "foo"
 
     def time_setitem_list(self, multiple_chunks):
-        indexer = list(range(0, 50)) + list(range(-1000, 0, 50))
+        indexer = list(range(50)) + list(range(-1000, 0, 50))
         self.array[indexer] = ["foo"] * len(indexer)
 
     def time_setitem_slice(self, multiple_chunks):

asv_bench/benchmarks/frame_methods.py

@@ -694,22 +694,28 @@ def time_frame_sort_values(self, ascending):
 
 
 class SortMultiKey:
-    def setup(self):
+    params = [True, False]
+    param_names = ["monotonic"]
+
+    def setup(self, monotonic):
         N = 10000
         K = 10
-        self.df_by_columns = DataFrame(
+        df = DataFrame(
             {
                 "key1": tm.makeStringIndex(N).values.repeat(K),
                 "key2": tm.makeStringIndex(N).values.repeat(K),
                 "value": np.random.randn(N * K),
             }
         )
-        self.df_by_index = self.df_by_columns.set_index(["key1", "key2"])
+        if monotonic:
+            df = df.sort_values(["key1", "key2"])
+        self.df_by_columns = df
+        self.df_by_index = df.set_index(["key1", "key2"])
 
-    def time_sort_values(self):
+    def time_sort_values(self, monotonic):
         self.df_by_columns.sort_values(by=["key1", "key2"])
 
-    def time_sort_index(self):
+    def time_sort_index(self, monotonic):
         self.df_by_index.sort_index()
 
 

asv_bench/benchmarks/join_merge.py

@@ -360,14 +360,14 @@ class MergeCategoricals:
     def setup(self):
         self.left_object = DataFrame(
             {
-                "X": np.random.choice(range(0, 10), size=(10000,)),
+                "X": np.random.choice(range(10), size=(10000,)),
                 "Y": np.random.choice(["one", "two", "three"], size=(10000,)),
             }
         )
 
         self.right_object = DataFrame(
             {
-                "X": np.random.choice(range(0, 10), size=(10000,)),
+                "X": np.random.choice(range(10), size=(10000,)),
                 "Z": np.random.choice(["jjj", "kkk", "sss"], size=(10000,)),
             }
         )

ci/deps/actions-310.yaml

@@ -6,8 +6,8 @@ dependencies:
 
   # build dependencies
   - versioneer[toml]
-  - cython>=0.29.33, <3.0.1
-  - meson[ninja]=1.0.1
+  - cython>=0.29.33
+  - meson[ninja]=1.2.1
   - meson-python=0.13.1
 
   # test dependencies
@@ -46,6 +46,7 @@ dependencies:
   - pymysql>=1.0.2
   - pyreadstat>=1.1.5
   - pytables>=3.7.0
+  - python-calamine>=0.1.6
   - pyxlsb>=1.0.9
   - s3fs>=2022.05.0
   - scipy>=1.8.1

ci/deps/actions-311-downstream_compat.yaml

@@ -7,8 +7,8 @@ dependencies:
 
   # build dependencies
   - versioneer[toml]
-  - cython>=0.29.33, <3.0.1
-  - meson[ninja]=1.0.1
+  - cython>=0.29.33
+  - meson[ninja]=1.2.1
   - meson-python=0.13.1
 
   # test dependencies
@@ -47,6 +47,7 @@ dependencies:
   - pymysql>=1.0.2
   - pyreadstat>=1.1.5
   - pytables>=3.7.0
+  - python-calamine>=0.1.6
   - pyxlsb>=1.0.9
   - s3fs>=2022.05.0
   - scipy>=1.8.1

ci/deps/actions-311-numpydev.yaml

@@ -6,8 +6,9 @@ dependencies:
 
   # build dependencies
   - versioneer[toml]
-  - meson[ninja]=1.0.1
+  - meson[ninja]=1.2.1
   - meson-python=0.13.1
+  - cython>=0.29.33
 
   # test dependencies
   - pytest>=7.3.2
@@ -25,7 +26,6 @@ dependencies:
   - pip
 
   - pip:
-    - "cython<3.0.1"
     - "--extra-index-url https://pypi.anaconda.org/scientific-python-nightly-wheels/simple"
     - "--pre"
     - "numpy"

ci/deps/actions-311-pyarrownightly.yaml

@@ -6,8 +6,8 @@ dependencies:
 
   # build dependencies
   - versioneer[toml]
-  - meson[ninja]=1.0.1
-  - cython>=0.29.33, <3.0.1
+  - meson[ninja]=1.2.1
+  - cython>=0.29.33
   - meson-python=0.13.1
 
   # test dependencies

ci/deps/actions-311.yaml

@@ -6,8 +6,8 @@ dependencies:
 
   # build dependencies
   - versioneer[toml]
-  - cython>=0.29.33, <3.0.1
-  - meson[ninja]=1.0.1
+  - cython>=0.29.33
+  - meson[ninja]=1.2.1
   - meson-python=0.13.1
 
   # test dependencies
@@ -46,6 +46,7 @@ dependencies:
   - pymysql>=1.0.2
   - pyreadstat>=1.1.5
   # - pytables>=3.7.0, 3.8.0 is first version that supports 3.11
+  - python-calamine>=0.1.6
   - pyxlsb>=1.0.9
   - s3fs>=2022.05.0
   - scipy>=1.8.1