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

Author: AndreyKolomiets

.github/workflows/unit-tests.yml

@@ -346,6 +346,52 @@ jobs:
       - name: Run Tests
         uses: ./.github/actions/run-tests
 
+  python-freethreading:
+    defaults:
+      run:
+        shell: bash -eou pipefail {0}
+    runs-on: ubuntu-22.04
+
+    timeout-minutes: 90
+
+    concurrency:
+      # https://github.community/t/concurrecy-not-work-for-push/183068/7
+      group: ${{ github.event_name == 'push' && github.run_number || github.ref }}-${{ matrix.os }}-python-freethreading-dev
+      cancel-in-progress: true
+
+    env:
+      PYTEST_WORKERS: "auto"
+      PANDAS_CI: 1
+      PATTERN: "not slow and not network and not clipboard and not single_cpu"
+      PYTEST_TARGET: pandas
+
+    steps:
+      - uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
+
+      - name: Set up Python Free-threading Version
+        uses: deadsnakes/[email protected]
+        with:
+          python-version: 3.13-dev
+          nogil: true
+
+      - name: Build Environment
+        run: |
+          python --version
+          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 cython
+          python -m pip install versioneer[toml]
+          python -m pip install python-dateutil pytz tzdata 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 --config-settings=setup-args="--werror"
+          python -m pip list
+
+      - name: Run Tests
+        uses: ./.github/actions/run-tests
+        env:
+          PYTHON_GIL: 0
+
+  # NOTE: this job must be kept in sync with the Pyodide build job in wheels.yml
   emscripten:
     # Note: the Python version, Emscripten toolchain version are determined
     # by the Pyodide version. The appropriate versions can be found in the

.github/workflows/wheels.yml

@@ -100,6 +100,13 @@ jobs:
         - [windows-2022, win_amd64]
         # TODO: support PyPy?
         python: [["cp310", "3.10"], ["cp311", "3.11"], ["cp312", "3.12"]]
+
+        # 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"]
     env:
       IS_PUSH: ${{ github.event_name == 'push' && startsWith(github.ref, 'refs/tags/v') }}
       IS_SCHEDULE_DISPATCH: ${{ github.event_name == 'schedule' || github.event_name == 'workflow_dispatch' }}
@@ -140,12 +147,13 @@ jobs:
         run: echo "sdist_name=$(cd ./dist && ls -d */)" >> "$GITHUB_ENV"
 
       - name: Build wheels
-        uses: pypa/[email protected].1
+        uses: pypa/[email protected].2
         with:
          package-dir: ./dist/${{ startsWith(matrix.buildplat[1], 'macosx') && env.sdist_name || needs.build_sdist.outputs.sdist_file }}
         env:
           CIBW_PRERELEASE_PYTHONS: True
           CIBW_BUILD: ${{ matrix.python[0] }}-${{ matrix.buildplat[1] }}
+          CIBW_PLATFORM: ${{ matrix.buildplat[1] == 'pyodide_wasm32' && 'pyodide' || 'auto' }}
 
       - name: Set up Python
         uses: mamba-org/setup-micromamba@v1

.pre-commit-config.yaml

@@ -19,7 +19,7 @@ ci:
     skip: [pyright, mypy]
 repos:
 -   repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.4.7
+    rev: v0.5.0
     hooks:
     -   id: ruff
         args: [--exit-non-zero-on-fix]
@@ -67,12 +67,13 @@ repos:
     -   id: fix-encoding-pragma
         args: [--remove]
     -   id: trailing-whitespace
+        args: [--markdown-linebreak-ext=md]
 -   repo: https://github.com/PyCQA/isort
     rev: 5.13.2
     hooks:
     -   id: isort
 -   repo: https://github.com/asottile/pyupgrade
-    rev: v3.15.2
+    rev: v3.16.0
     hooks:
     -   id: pyupgrade
         args: [--py310-plus]
@@ -92,7 +93,7 @@ repos:
     - id: sphinx-lint
       args: ["--enable", "all", "--disable", "line-too-long"]
 -   repo: https://github.com/pre-commit/mirrors-clang-format
-    rev: v18.1.5
+    rev: v18.1.8
     hooks:
     - id: clang-format
       files: ^pandas/_libs/src|^pandas/_libs/include

asv_bench/benchmarks/indexing.py

@@ -546,24 +546,17 @@ def time_chained_indexing(self, mode):
 
 
 class Block:
-    params = [
-        (True, "True"),
-        (np.array(True), "np.array(True)"),
-    ]
-
-    def setup(self, true_value, mode):
+    def setup(self):
         self.df = DataFrame(
             False,
             columns=np.arange(500).astype(str),
             index=date_range("2010-01-01", "2011-01-01"),
         )
 
-        self.true_value = true_value
-
-    def time_test(self, true_value, mode):
+    def time_test(self):
         start = datetime(2010, 5, 1)
         end = datetime(2010, 9, 1)
-        self.df.loc[start:end, :] = true_value
+        self.df.loc[start:end, :] = True
 
 
 from .pandas_vb_common import setup  # noqa: F401 isort:skip

asv_bench/benchmarks/tslibs/timedelta.py

@@ -20,7 +20,7 @@ def time_from_int(self):
         Timedelta(123456789)
 
     def time_from_unit(self):
-        Timedelta(1, unit="d")
+        Timedelta(1, unit="D")
 
     def time_from_components(self):
         Timedelta(

ci/code_checks.sh

@@ -70,10 +70,6 @@ if [[ -z "$CHECK" || "$CHECK" == "docstrings" ]]; then
         --format=actions \
         -i ES01 `# For now it is ok if docstrings are missing the extended summary` \
         -i "pandas.Series.dt PR01" `# Accessors are implemented as classes, but we do not document the Parameters section` \
-        -i "pandas.DataFrame.max RT03" \
-        -i "pandas.DataFrame.mean RT03" \
-        -i "pandas.DataFrame.median RT03" \
-        -i "pandas.DataFrame.min RT03" \
         -i "pandas.DataFrame.plot PR02" \
         -i "pandas.Grouper PR02" \
         -i "pandas.MultiIndex.append PR07,SA01" \
@@ -95,7 +91,6 @@ if [[ -z "$CHECK" || "$CHECK" == "docstrings" ]]; then
         -i "pandas.Period.freq GL08" \
         -i "pandas.Period.freqstr SA01" \
         -i "pandas.Period.month SA01" \
-        -i "pandas.Period.now SA01" \
         -i "pandas.Period.ordinal GL08" \
         -i "pandas.Period.strftime PR01,SA01" \
         -i "pandas.Period.to_timestamp SA01" \
@@ -162,12 +157,12 @@ if [[ -z "$CHECK" || "$CHECK" == "docstrings" ]]; then
         -i "pandas.Series.ne SA01" \
         -i "pandas.Series.pad PR01,SA01" \
         -i "pandas.Series.plot PR02" \
-        -i "pandas.Series.pop RT03,SA01" \
+        -i "pandas.Series.pop SA01" \
         -i "pandas.Series.prod RT03" \
         -i "pandas.Series.product RT03" \
         -i "pandas.Series.reorder_levels RT03,SA01" \
         -i "pandas.Series.sem PR01,RT03,SA01" \
-        -i "pandas.Series.skew RT03,SA01" \
+        -i "pandas.Series.skew SA01" \
         -i "pandas.Series.sparse PR01,SA01" \
         -i "pandas.Series.sparse.density SA01" \
         -i "pandas.Series.sparse.fill_value SA01" \
@@ -244,13 +239,11 @@ if [[ -z "$CHECK" || "$CHECK" == "docstrings" ]]; then
         -i "pandas.Timestamp.month_name SA01" \
         -i "pandas.Timestamp.nanosecond GL08" \
         -i "pandas.Timestamp.normalize SA01" \
-        -i "pandas.Timestamp.now SA01" \
         -i "pandas.Timestamp.quarter SA01" \
         -i "pandas.Timestamp.replace PR07,SA01" \
         -i "pandas.Timestamp.resolution PR02" \
         -i "pandas.Timestamp.second GL08" \
         -i "pandas.Timestamp.strptime PR01,SA01" \
-        -i "pandas.Timestamp.time SA01" \
         -i "pandas.Timestamp.timestamp SA01" \
         -i "pandas.Timestamp.timetuple SA01" \
         -i "pandas.Timestamp.timetz SA01" \
@@ -260,7 +253,6 @@ if [[ -z "$CHECK" || "$CHECK" == "docstrings" ]]; then
         -i "pandas.Timestamp.to_period PR01,SA01" \
         -i "pandas.Timestamp.today SA01" \
         -i "pandas.Timestamp.toordinal SA01" \
-        -i "pandas.Timestamp.tz SA01" \
         -i "pandas.Timestamp.tz_localize SA01" \
         -i "pandas.Timestamp.tzinfo GL08" \
         -i "pandas.Timestamp.tzname SA01" \
@@ -318,11 +310,9 @@ if [[ -z "$CHECK" || "$CHECK" == "docstrings" ]]; then
         -i "pandas.api.types.is_period_dtype SA01" \
         -i "pandas.api.types.is_re PR07,SA01" \
         -i "pandas.api.types.is_re_compilable PR07,SA01" \
-        -i "pandas.api.types.is_signed_integer_dtype SA01" \
         -i "pandas.api.types.is_sparse SA01" \
         -i "pandas.api.types.is_string_dtype SA01" \
         -i "pandas.api.types.is_timedelta64_ns_dtype SA01" \
-        -i "pandas.api.types.is_unsigned_integer_dtype SA01" \
         -i "pandas.api.types.pandas_dtype PR07,RT03,SA01" \
         -i "pandas.api.types.union_categoricals RT03,SA01" \
         -i "pandas.arrays.ArrowExtensionArray PR07,SA01" \

doc/source/getting_started/intro_tutorials/04_plotting.rst

@@ -32,8 +32,10 @@ How do I create plots in pandas?
     air_quality.head()
 
 .. note::
-    The usage of the ``index_col`` and ``parse_dates`` parameters of the ``read_csv`` function to define the first (0th) column as
-    index of the resulting ``DataFrame`` and convert the dates in the column to :class:`Timestamp` objects, respectively.
+    The ``index_col=0`` and ``parse_dates=True`` parameters passed to the ``read_csv`` function define
+    the first (0th) column as index of the resulting ``DataFrame`` and convert the dates in the column
+    to :class:`Timestamp`  objects, respectively.
+
 
 .. raw:: html
 

doc/source/getting_started/overview.rst

@@ -6,11 +6,11 @@
 Package overview
 ****************
 
-pandas is a `Python <https://www.python.org>`__ package providing fast,
+pandas is a `Python <https://www.python.org>`__ package that provides fast,
 flexible, and expressive data structures designed to make working with
 "relational" or "labeled" data both easy and intuitive. It aims to be the
-fundamental high-level building block for doing practical, **real-world** data
-analysis in Python. Additionally, it has the broader goal of becoming **the
+fundamental high-level building block for Python's practical, **real-world** data
+analysis. Additionally, it seeks to become **the
 most powerful and flexible open source data analysis/manipulation tool
 available in any language**. It is already well on its way toward this goal.
 

doc/source/user_guide/categorical.rst

@@ -793,7 +793,7 @@ Assigning a ``Categorical`` to parts of a column of other types will use the val
     :okwarning:
 
     df = pd.DataFrame({"a": [1, 1, 1, 1, 1], "b": ["a", "a", "a", "a", "a"]})
-    df.loc[1:2, "a"] = pd.Categorical(["b", "b"], categories=["a", "b"])
+    df.loc[1:2, "a"] = pd.Categorical([2, 2], categories=[2, 3])
     df.loc[2:3, "b"] = pd.Categorical(["b", "b"], categories=["a", "b"])
     df
     df.dtypes

doc/source/user_guide/io.rst

@@ -2161,7 +2161,7 @@ a JSON string with two fields, ``schema`` and ``data``.
        {
            "A": [1, 2, 3],
            "B": ["a", "b", "c"],
-           "C": pd.date_range("2016-01-01", freq="d", periods=3),
+           "C": pd.date_range("2016-01-01", freq="D", periods=3),
        },
        index=pd.Index(range(3), name="idx"),
    )
@@ -2270,7 +2270,7 @@ round-trippable manner.
        {
            "foo": [1, 2, 3, 4],
            "bar": ["a", "b", "c", "d"],
-           "baz": pd.date_range("2018-01-01", freq="d", periods=4),
+           "baz": pd.date_range("2018-01-01", freq="D", periods=4),
            "qux": pd.Categorical(["a", "b", "c", "c"]),
        },
        index=pd.Index(range(4), name="idx"),