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How to use parse_check_statistics method in pandera

Best Python code snippet using pandera_python

test_schema_statistics.py

Source:test_schema_statistics.py

...129        ],130        [{}, None],131    ],132)133def test_parse_check_statistics(check_stats, expectation) -> None:134    """Test that Checks are correctly parsed from check statistics."""135    if expectation is None:136        expectation = []137    checks = schema_statistics.parse_check_statistics(check_stats)138    if checks is None:139        checks = []140    assert set(checks) == set(expectation)141def _test_statistics(statistics, expectations):142    if not isinstance(statistics, list):143        statistics = [statistics]144    if not isinstance(expectations, list):145        expectations = [expectations]146    for stats, expectation in zip(statistics, expectations):147        stat_dtype = stats.pop("dtype")148        expectation_dtype = expectation.pop("dtype")149        assert stats == expectation150        assert expectation_dtype.check(stat_dtype)151@pytest.mark.parametrize(152    "series, expectation",153    [154        *[155            [156                pd.Series(157                    [1, 2, 3], dtype=str(pandas_engine.Engine.dtype(data_type))158                ),159                {160                    "dtype": pandas_engine.Engine.dtype(data_type),161                    "nullable": False,162                    "checks": {163                        "greater_than_or_equal_to": 1,164                        "less_than_or_equal_to": 3,165                    },166                    "name": None,167                },168            ]169            for data_type in NUMERIC_TYPES170        ],171        [172            pd.Series(["a", "b", "c", "a"], dtype="category"),173            {174                "dtype": pandas_engine.Engine.dtype(pa.Category),175                "nullable": False,176                "checks": {"isin": ["a", "b", "c"]},177                "name": None,178            },179        ],180        [181            pd.Series(["a", "b", "c", "a"], dtype="string", name="str_series"),182            {183                "dtype": pandas_engine.Engine.dtype("string"),184                "nullable": False,185                "checks": None,186                "name": "str_series",187            },188        ],189        [190            pd.Series(pd.to_datetime(["20180101", "20180102", "20180103"])),191            {192                "dtype": pandas_engine.Engine.dtype(pa.DateTime),193                "nullable": False,194                "checks": {195                    "greater_than_or_equal_to": pd.Timestamp("20180101"),196                    "less_than_or_equal_to": pd.Timestamp("20180103"),197                },198                "name": None,199            },200        ],201    ],202)203def test_infer_series_schema_statistics(series, expectation) -> None:204    """Test series statistics are correctly inferred."""205    statistics = schema_statistics.infer_series_statistics(series)206    _test_statistics(statistics, expectation)207@pytest.mark.parametrize(208    "null_index, series, expectation",209    [210        *[211            [212                0,213                pd.Series([1, 2, 3], dtype=str(data_type)),214                {215                    # introducing nans to integer arrays upcasts to float216                    "dtype": DEFAULT_FLOAT,217                    "nullable": True,218                    "checks": {219                        "greater_than_or_equal_to": 2,220                        "less_than_or_equal_to": 3,221                    },222                    "name": None,223                },224            ]225            for data_type in INTEGER_TYPES226        ],227        [228            # introducing nans to bool arrays upcasts to float except229            # for pandas >= 1.3.0230            0,231            pd.Series([True, False, True, False]),232            {233                "dtype": (234                    pandas_engine.Engine.dtype(pa.BOOL)235                    if pa.PANDAS_1_3_0_PLUS236                    else DEFAULT_FLOAT237                ),238                "nullable": True,239                "checks": (240                    None241                    if pa.PANDAS_1_3_0_PLUS242                    else {243                        "greater_than_or_equal_to": 0,244                        "less_than_or_equal_to": 1,245                    }246                ),247                "name": None,248            },249        ],250        [251            0,252            pd.Series(["a", "b", "c", "a"], dtype="category"),253            {254                "dtype": pandas_engine.Engine.dtype(pa.Category),255                "nullable": True,256                "checks": {"isin": ["a", "b", "c"]},257                "name": None,258            },259        ],260        [261            0,262            pd.Series(["a", "b", "c", "a"], name="str_series"),263            {264                "dtype": pandas_engine.Engine.dtype(str),265                "nullable": True,266                "checks": None,267                "name": "str_series",268            },269        ],270        [271            2,272            pd.Series(pd.to_datetime(["20180101", "20180102", "20180103"])),273            {274                "dtype": pandas_engine.Engine.dtype(pa.DateTime),275                "nullable": True,276                "checks": {277                    "greater_than_or_equal_to": pd.Timestamp("20180101"),278                    "less_than_or_equal_to": pd.Timestamp("20180102"),279                },280                "name": None,281            },282        ],283    ],284)285def test_infer_nullable_series_schema_statistics(286    null_index, series, expectation287):288    """Test nullable series statistics are correctly inferred."""289    series.iloc[null_index] = None290    statistics = schema_statistics.infer_series_statistics(series)291    _test_statistics(statistics, expectation)292@pytest.mark.parametrize(293    "index, expectation",294    [295        [296            pd.RangeIndex(20),297            [298                {299                    "name": None,300                    "dtype": DEFAULT_INT,301                    "nullable": False,302                    "checks": {303                        "greater_than_or_equal_to": 0,304                        "less_than_or_equal_to": 19,305                    },306                }307            ],308        ],309        [310            pd.Index([1, 2, 3], name="int_index"),311            [312                {313                    "name": "int_index",314                    "dtype": DEFAULT_INT,315                    "nullable": False,316                    "checks": {317                        "greater_than_or_equal_to": 1,318                        "less_than_or_equal_to": 3,319                    },320                }321            ],322        ],323        [324            pd.Index(["foo", "bar", "baz"], name="str_index"),325            [326                {327                    "name": "str_index",328                    "dtype": pandas_engine.Engine.dtype("object"),329                    "nullable": False,330                    "checks": None,331                },332            ],333        ],334        [335            pd.MultiIndex.from_arrays(336                [[10, 11, 12], pd.Series(["a", "b", "c"], dtype="category")],337                names=["int_index", "str_index"],338            ),339            [340                {341                    "name": "int_index",342                    "dtype": DEFAULT_INT,343                    "nullable": False,344                    "checks": {345                        "greater_than_or_equal_to": 10,346                        "less_than_or_equal_to": 12,347                    },348                },349                {350                    "name": "str_index",351                    "dtype": pandas_engine.Engine.dtype(pa.Category),352                    "nullable": False,353                    "checks": {"isin": ["a", "b", "c"]},354                },355            ],356        ],357        # UserWarning cases358        [1, UserWarning],359        ["foo", UserWarning],360        [{"foo": "bar"}, UserWarning],361        [["foo", "bar"], UserWarning],362        [pd.Series(["foo", "bar"]), UserWarning],363        [pd.DataFrame({"column": ["foo", "bar"]}), UserWarning],364    ],365)366def test_infer_index_statistics(index, expectation):367    """Test that index statistics are correctly inferred."""368    if expectation is UserWarning:369        with pytest.warns(UserWarning, match="^index type .+ not recognized"):370            schema_statistics.infer_index_statistics(index)371    else:372        _test_statistics(373            schema_statistics.infer_index_statistics(index), expectation374        )375def test_get_dataframe_schema_statistics():376    """Test that dataframe schema statistics logic is correct."""377    schema = pa.DataFrameSchema(378        columns={379            "int": pa.Column(380                int,381                checks=[382                    pa.Check.greater_than_or_equal_to(0),383                    pa.Check.less_than_or_equal_to(100),384                ],385                nullable=True,386            ),387            "float": pa.Column(388                float,389                checks=[390                    pa.Check.greater_than_or_equal_to(50),391                    pa.Check.less_than_or_equal_to(100),392                ],393            ),394            "str": pa.Column(395                str,396                checks=[pa.Check.isin(["foo", "bar", "baz"])],397            ),398        },399        index=pa.Index(400            int,401            checks=pa.Check.greater_than_or_equal_to(0),402            nullable=False,403            name="int_index",404        ),405    )406    expectation = {407        "checks": None,408        "columns": {409            "int": {410                "dtype": DEFAULT_INT,411                "checks": {412                    "greater_than_or_equal_to": {"min_value": 0},413                    "less_than_or_equal_to": {"max_value": 100},414                },415                "nullable": True,416                "unique": False,417                "coerce": False,418                "required": True,419                "regex": False,420            },421            "float": {422                "dtype": DEFAULT_FLOAT,423                "checks": {424                    "greater_than_or_equal_to": {"min_value": 50},425                    "less_than_or_equal_to": {"max_value": 100},426                },427                "nullable": False,428                "unique": False,429                "coerce": False,430                "required": True,431                "regex": False,432            },433            "str": {434                "dtype": pandas_engine.Engine.dtype(str),435                "checks": {"isin": {"allowed_values": ["foo", "bar", "baz"]}},436                "nullable": False,437                "unique": False,438                "coerce": False,439                "required": True,440                "regex": False,441            },442        },443        "index": [444            {445                "dtype": DEFAULT_INT,446                "checks": {"greater_than_or_equal_to": {"min_value": 0}},447                "nullable": False,448                "coerce": False,449                "name": "int_index",450            }451        ],452        "coerce": False,453    }454    statistics = schema_statistics.get_dataframe_schema_statistics(schema)455    assert statistics == expectation456def test_get_series_schema_statistics():457    """Test that series schema statistics logic is correct."""458    schema = pa.SeriesSchema(459        int,460        nullable=False,461        checks=[462            pa.Check.greater_than_or_equal_to(0),463            pa.Check.less_than_or_equal_to(100),464        ],465    )466    statistics = schema_statistics.get_series_schema_statistics(schema)467    assert statistics == {468        "dtype": pandas_engine.Engine.dtype(int),469        "nullable": False,470        "checks": {471            "greater_than_or_equal_to": {"min_value": 0},472            "less_than_or_equal_to": {"max_value": 100},473        },474        "name": None,475        "coerce": False,476    }477@pytest.mark.parametrize(478    "index_schema_component, expectation",479    [480        [481            pa.Index(482                int,483                checks=[484                    pa.Check.greater_than_or_equal_to(10),485                    pa.Check.less_than_or_equal_to(20),486                ],487                nullable=False,488                name="int_index",489            ),490            [491                {492                    "dtype": pandas_engine.Engine.dtype(int),493                    "nullable": False,494                    "checks": {495                        "greater_than_or_equal_to": {"min_value": 10},496                        "less_than_or_equal_to": {"max_value": 20},497                    },498                    "name": "int_index",499                    "coerce": False,500                }501            ],502        ]503    ],504)505def test_get_index_schema_statistics(index_schema_component, expectation):506    """Test that index schema statistics logic is correct."""507    statistics = schema_statistics.get_index_schema_statistics(508        index_schema_component509    )510    _test_statistics(statistics, expectation)511@pytest.mark.parametrize(512    "checks, expectation",513    [514        *[515            [[check], {check.name: check.statistics}]516            for check in [517                pa.Check.greater_than(1),518                pa.Check.less_than(1),519                pa.Check.in_range(1, 3),520                pa.Check.equal_to(1),521                pa.Check.not_equal_to(1),522                pa.Check.notin([1, 2, 3]),523                pa.Check.str_matches("foobar"),524                pa.Check.str_contains("foobar"),525                pa.Check.str_startswith("foobar"),526                pa.Check.str_endswith("foobar"),527                pa.Check.str_length(5, 10),528            ]529        ],530        # multiple checks at once531        [532            [533                pa.Check.greater_than_or_equal_to(10),534                pa.Check.less_than_or_equal_to(50),535                pa.Check.isin([10, 20, 30, 40, 50]),536            ],537            {538                "greater_than_or_equal_to": {"min_value": 10},539                "less_than_or_equal_to": {"max_value": 50},540                "isin": {"allowed_values": [10, 20, 30, 40, 50]},541            },542        ],543        # incompatible checks544        *[545            [546                [547                    pa.Check.greater_than_or_equal_to(min_value),548                    pa.Check.less_than_or_equal_to(max_value),549                ],550                ValueError,551            ]552            for min_value, max_value in [553                (5, 1),554                (10, 1),555                (100, 10),556                (1000, 100),557            ]558        ],559    ],560)561def test_parse_checks_and_statistics_roundtrip(checks, expectation):562    """563    Test that parse checks correctly obtain statistics from checks and564    vice-versa.565    """566    if expectation is ValueError:567        with pytest.raises(ValueError):568            schema_statistics.parse_checks(checks)569        return570    assert schema_statistics.parse_checks(checks) == expectation571    check_statistics = {check.name: check.statistics for check in checks}572    check_list = schema_statistics.parse_check_statistics(check_statistics)573    assert set(check_list) == set(checks)574# pylint: disable=unused-argument575def test_parse_checks_and_statistics_no_param(extra_registered_checks):576    """577    Ensure that an edge case where a check does not have parameters is578    appropriately handled.579    """580    checks = [pa.Check.no_param_check()]581    expectation = {"no_param_check": {}}582    assert schema_statistics.parse_checks(checks) == expectation583    check_statistics = {check.name: check.statistics for check in checks}584    check_list = schema_statistics.parse_check_statistics(check_statistics)585    assert set(check_list) == set(checks)...

schema_inference.py

Source:schema_inference.py

...28def _create_index(index_statistics):29    index = [30        Index(31            properties["dtype"],32            checks=parse_check_statistics(properties["checks"]),33            nullable=properties["nullable"],34            name=properties["name"],35        )36        for properties in index_statistics37    ]38    if len(index) == 1:39        index = index[0]  # type: ignore40    else:41        index = MultiIndex(index)  # type: ignore42    return index43def infer_dataframe_schema(df: pd.DataFrame) -> DataFrameSchema:44    """Infer a DataFrameSchema from a pandas DataFrame.45    :param df: DataFrame object to infer.46    :returns: DataFrameSchema47    """48    df_statistics = infer_dataframe_statistics(df)49    schema = DataFrameSchema(50        columns={51            colname: Column(52                properties["dtype"],53                checks=parse_check_statistics(properties["checks"]),54                nullable=properties["nullable"],55            )56            for colname, properties in df_statistics["columns"].items()57        },58        index=_create_index(df_statistics["index"]),59        coerce=True,60    )61    schema._is_inferred = True62    return schema63def infer_series_schema(series) -> SeriesSchema:64    """Infer a SeriesSchema from a pandas DataFrame.65    :param series: Series object to infer.66    :returns: SeriesSchema67    """68    series_statistics = infer_series_statistics(series)69    schema = SeriesSchema(70        dtype=series_statistics["dtype"],71        checks=parse_check_statistics(series_statistics["checks"]),72        nullable=series_statistics["nullable"],73        name=series_statistics["name"],74        coerce=True,75    )76    schema._is_inferred = True...

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