977 lines
33 KiB
Python
977 lines
33 KiB
Python
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from warnings import catch_warnings
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import numpy as np
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import pytest
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from pandas._libs.tslibs import Timestamp
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import pandas as pd
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from pandas import (
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DataFrame,
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HDFStore,
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Index,
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MultiIndex,
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Series,
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_testing as tm,
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bdate_range,
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concat,
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date_range,
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isna,
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read_hdf,
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)
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from pandas.tests.io.pytables.common import (
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_maybe_remove,
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ensure_clean_path,
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ensure_clean_store,
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)
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from pandas.io.pytables import Term
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pytestmark = pytest.mark.single_cpu
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def test_select_columns_in_where(setup_path):
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# GH 6169
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# recreate multi-indexes when columns is passed
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# in the `where` argument
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index = MultiIndex(
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levels=[["foo", "bar", "baz", "qux"], ["one", "two", "three"]],
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codes=[[0, 0, 0, 1, 1, 2, 2, 3, 3, 3], [0, 1, 2, 0, 1, 1, 2, 0, 1, 2]],
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names=["foo_name", "bar_name"],
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)
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# With a DataFrame
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df = DataFrame(np.random.randn(10, 3), index=index, columns=["A", "B", "C"])
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with ensure_clean_store(setup_path) as store:
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store.put("df", df, format="table")
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expected = df[["A"]]
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tm.assert_frame_equal(store.select("df", columns=["A"]), expected)
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tm.assert_frame_equal(store.select("df", where="columns=['A']"), expected)
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# With a Series
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s = Series(np.random.randn(10), index=index, name="A")
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with ensure_clean_store(setup_path) as store:
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store.put("s", s, format="table")
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tm.assert_series_equal(store.select("s", where="columns=['A']"), s)
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def test_select_with_dups(setup_path):
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# single dtypes
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df = DataFrame(np.random.randn(10, 4), columns=["A", "A", "B", "B"])
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df.index = date_range("20130101 9:30", periods=10, freq="T")
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with ensure_clean_store(setup_path) as store:
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store.append("df", df)
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result = store.select("df")
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expected = df
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tm.assert_frame_equal(result, expected, by_blocks=True)
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result = store.select("df", columns=df.columns)
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expected = df
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tm.assert_frame_equal(result, expected, by_blocks=True)
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result = store.select("df", columns=["A"])
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expected = df.loc[:, ["A"]]
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tm.assert_frame_equal(result, expected)
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# dups across dtypes
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df = concat(
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[
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DataFrame(np.random.randn(10, 4), columns=["A", "A", "B", "B"]),
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DataFrame(
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np.random.randint(0, 10, size=20).reshape(10, 2), columns=["A", "C"]
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),
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],
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axis=1,
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)
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df.index = date_range("20130101 9:30", periods=10, freq="T")
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with ensure_clean_store(setup_path) as store:
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store.append("df", df)
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result = store.select("df")
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expected = df
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tm.assert_frame_equal(result, expected, by_blocks=True)
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result = store.select("df", columns=df.columns)
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expected = df
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tm.assert_frame_equal(result, expected, by_blocks=True)
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expected = df.loc[:, ["A"]]
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result = store.select("df", columns=["A"])
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tm.assert_frame_equal(result, expected, by_blocks=True)
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expected = df.loc[:, ["B", "A"]]
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result = store.select("df", columns=["B", "A"])
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tm.assert_frame_equal(result, expected, by_blocks=True)
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# duplicates on both index and columns
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with ensure_clean_store(setup_path) as store:
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store.append("df", df)
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store.append("df", df)
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expected = df.loc[:, ["B", "A"]]
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expected = concat([expected, expected])
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result = store.select("df", columns=["B", "A"])
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tm.assert_frame_equal(result, expected, by_blocks=True)
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def test_select(setup_path):
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with ensure_clean_store(setup_path) as store:
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with catch_warnings(record=True):
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# select with columns=
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df = tm.makeTimeDataFrame()
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_maybe_remove(store, "df")
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store.append("df", df)
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result = store.select("df", columns=["A", "B"])
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expected = df.reindex(columns=["A", "B"])
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tm.assert_frame_equal(expected, result)
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# equivalently
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result = store.select("df", [("columns=['A', 'B']")])
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expected = df.reindex(columns=["A", "B"])
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tm.assert_frame_equal(expected, result)
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# with a data column
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_maybe_remove(store, "df")
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store.append("df", df, data_columns=["A"])
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result = store.select("df", ["A > 0"], columns=["A", "B"])
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expected = df[df.A > 0].reindex(columns=["A", "B"])
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tm.assert_frame_equal(expected, result)
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# all a data columns
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_maybe_remove(store, "df")
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store.append("df", df, data_columns=True)
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result = store.select("df", ["A > 0"], columns=["A", "B"])
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expected = df[df.A > 0].reindex(columns=["A", "B"])
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tm.assert_frame_equal(expected, result)
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# with a data column, but different columns
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_maybe_remove(store, "df")
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store.append("df", df, data_columns=["A"])
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result = store.select("df", ["A > 0"], columns=["C", "D"])
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expected = df[df.A > 0].reindex(columns=["C", "D"])
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tm.assert_frame_equal(expected, result)
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def test_select_dtypes(setup_path):
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with ensure_clean_store(setup_path) as store:
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# with a Timestamp data column (GH #2637)
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df = DataFrame(
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{
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"ts": bdate_range("2012-01-01", periods=300),
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"A": np.random.randn(300),
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}
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)
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_maybe_remove(store, "df")
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store.append("df", df, data_columns=["ts", "A"])
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result = store.select("df", "ts>=Timestamp('2012-02-01')")
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expected = df[df.ts >= Timestamp("2012-02-01")]
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tm.assert_frame_equal(expected, result)
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# bool columns (GH #2849)
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df = DataFrame(np.random.randn(5, 2), columns=["A", "B"])
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df["object"] = "foo"
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df.loc[4:5, "object"] = "bar"
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df["boolv"] = df["A"] > 0
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_maybe_remove(store, "df")
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store.append("df", df, data_columns=True)
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expected = df[df.boolv == True].reindex(columns=["A", "boolv"]) # noqa:E712
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for v in [True, "true", 1]:
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result = store.select("df", f"boolv == {v}", columns=["A", "boolv"])
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tm.assert_frame_equal(expected, result)
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expected = df[df.boolv == False].reindex(columns=["A", "boolv"]) # noqa:E712
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for v in [False, "false", 0]:
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result = store.select("df", f"boolv == {v}", columns=["A", "boolv"])
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tm.assert_frame_equal(expected, result)
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# integer index
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df = DataFrame({"A": np.random.rand(20), "B": np.random.rand(20)})
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_maybe_remove(store, "df_int")
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store.append("df_int", df)
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result = store.select("df_int", "index<10 and columns=['A']")
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expected = df.reindex(index=list(df.index)[0:10], columns=["A"])
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tm.assert_frame_equal(expected, result)
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# float index
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df = DataFrame(
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{
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"A": np.random.rand(20),
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"B": np.random.rand(20),
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"index": np.arange(20, dtype="f8"),
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}
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)
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_maybe_remove(store, "df_float")
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store.append("df_float", df)
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result = store.select("df_float", "index<10.0 and columns=['A']")
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expected = df.reindex(index=list(df.index)[0:10], columns=["A"])
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tm.assert_frame_equal(expected, result)
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with ensure_clean_store(setup_path) as store:
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# floats w/o NaN
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df = DataFrame({"cols": range(11), "values": range(11)}, dtype="float64")
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df["cols"] = (df["cols"] + 10).apply(str)
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store.append("df1", df, data_columns=True)
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result = store.select("df1", where="values>2.0")
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expected = df[df["values"] > 2.0]
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tm.assert_frame_equal(expected, result)
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# floats with NaN
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df.iloc[0] = np.nan
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expected = df[df["values"] > 2.0]
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store.append("df2", df, data_columns=True, index=False)
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result = store.select("df2", where="values>2.0")
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tm.assert_frame_equal(expected, result)
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# https://github.com/PyTables/PyTables/issues/282
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# bug in selection when 0th row has a np.nan and an index
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# store.append('df3',df,data_columns=True)
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# result = store.select(
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# 'df3', where='values>2.0')
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# tm.assert_frame_equal(expected, result)
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# not in first position float with NaN ok too
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df = DataFrame({"cols": range(11), "values": range(11)}, dtype="float64")
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df["cols"] = (df["cols"] + 10).apply(str)
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df.iloc[1] = np.nan
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expected = df[df["values"] > 2.0]
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store.append("df4", df, data_columns=True)
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result = store.select("df4", where="values>2.0")
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tm.assert_frame_equal(expected, result)
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# test selection with comparison against numpy scalar
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# GH 11283
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with ensure_clean_store(setup_path) as store:
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df = tm.makeDataFrame()
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expected = df[df["A"] > 0]
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store.append("df", df, data_columns=True)
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np_zero = np.float64(0) # noqa:F841
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result = store.select("df", where=["A>np_zero"])
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tm.assert_frame_equal(expected, result)
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def test_select_with_many_inputs(setup_path):
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with ensure_clean_store(setup_path) as store:
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df = DataFrame(
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{
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"ts": bdate_range("2012-01-01", periods=300),
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"A": np.random.randn(300),
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"B": range(300),
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"users": ["a"] * 50
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+ ["b"] * 50
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+ ["c"] * 100
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+ [f"a{i:03d}" for i in range(100)],
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}
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)
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_maybe_remove(store, "df")
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store.append("df", df, data_columns=["ts", "A", "B", "users"])
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# regular select
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result = store.select("df", "ts>=Timestamp('2012-02-01')")
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expected = df[df.ts >= Timestamp("2012-02-01")]
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tm.assert_frame_equal(expected, result)
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# small selector
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result = store.select("df", "ts>=Timestamp('2012-02-01') & users=['a','b','c']")
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expected = df[
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(df.ts >= Timestamp("2012-02-01")) & df.users.isin(["a", "b", "c"])
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]
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tm.assert_frame_equal(expected, result)
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# big selector along the columns
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selector = ["a", "b", "c"] + [f"a{i:03d}" for i in range(60)]
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result = store.select("df", "ts>=Timestamp('2012-02-01') and users=selector")
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expected = df[(df.ts >= Timestamp("2012-02-01")) & df.users.isin(selector)]
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tm.assert_frame_equal(expected, result)
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selector = range(100, 200)
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result = store.select("df", "B=selector")
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expected = df[df.B.isin(selector)]
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tm.assert_frame_equal(expected, result)
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assert len(result) == 100
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# big selector along the index
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selector = Index(df.ts[0:100].values)
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result = store.select("df", "ts=selector")
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expected = df[df.ts.isin(selector.values)]
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tm.assert_frame_equal(expected, result)
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assert len(result) == 100
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def test_select_iterator(setup_path):
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# single table
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with ensure_clean_store(setup_path) as store:
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df = tm.makeTimeDataFrame(500)
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_maybe_remove(store, "df")
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store.append("df", df)
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expected = store.select("df")
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results = list(store.select("df", iterator=True))
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result = concat(results)
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tm.assert_frame_equal(expected, result)
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results = list(store.select("df", chunksize=100))
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assert len(results) == 5
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result = concat(results)
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tm.assert_frame_equal(expected, result)
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results = list(store.select("df", chunksize=150))
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result = concat(results)
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tm.assert_frame_equal(result, expected)
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with ensure_clean_path(setup_path) as path:
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df = tm.makeTimeDataFrame(500)
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df.to_hdf(path, "df_non_table")
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msg = "can only use an iterator or chunksize on a table"
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with pytest.raises(TypeError, match=msg):
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read_hdf(path, "df_non_table", chunksize=100)
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with pytest.raises(TypeError, match=msg):
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|
|
read_hdf(path, "df_non_table", iterator=True)
|
||
|
|
|
||
|
|
with ensure_clean_path(setup_path) as path:
|
||
|
|
|
||
|
|
df = tm.makeTimeDataFrame(500)
|
||
|
|
df.to_hdf(path, "df", format="table")
|
||
|
|
|
||
|
|
results = list(read_hdf(path, "df", chunksize=100))
|
||
|
|
result = concat(results)
|
||
|
|
|
||
|
|
assert len(results) == 5
|
||
|
|
tm.assert_frame_equal(result, df)
|
||
|
|
tm.assert_frame_equal(result, read_hdf(path, "df"))
|
||
|
|
|
||
|
|
# multiple
|
||
|
|
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
|
||
|
|
df1 = tm.makeTimeDataFrame(500)
|
||
|
|
store.append("df1", df1, data_columns=True)
|
||
|
|
df2 = tm.makeTimeDataFrame(500).rename(columns="{}_2".format)
|
||
|
|
df2["foo"] = "bar"
|
||
|
|
store.append("df2", df2)
|
||
|
|
|
||
|
|
df = concat([df1, df2], axis=1)
|
||
|
|
|
||
|
|
# full selection
|
||
|
|
expected = store.select_as_multiple(["df1", "df2"], selector="df1")
|
||
|
|
results = list(
|
||
|
|
store.select_as_multiple(["df1", "df2"], selector="df1", chunksize=150)
|
||
|
|
)
|
||
|
|
result = concat(results)
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
|
||
|
|
def test_select_iterator_complete_8014(setup_path):
|
||
|
|
|
||
|
|
# GH 8014
|
||
|
|
# using iterator and where clause
|
||
|
|
chunksize = 1e4
|
||
|
|
|
||
|
|
# no iterator
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
|
||
|
|
expected = tm.makeTimeDataFrame(100064, "S")
|
||
|
|
_maybe_remove(store, "df")
|
||
|
|
store.append("df", expected)
|
||
|
|
|
||
|
|
beg_dt = expected.index[0]
|
||
|
|
end_dt = expected.index[-1]
|
||
|
|
|
||
|
|
# select w/o iteration and no where clause works
|
||
|
|
result = store.select("df")
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
# select w/o iterator and where clause, single term, begin
|
||
|
|
# of range, works
|
||
|
|
where = f"index >= '{beg_dt}'"
|
||
|
|
result = store.select("df", where=where)
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
# select w/o iterator and where clause, single term, end
|
||
|
|
# of range, works
|
||
|
|
where = f"index <= '{end_dt}'"
|
||
|
|
result = store.select("df", where=where)
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
# select w/o iterator and where clause, inclusive range,
|
||
|
|
# works
|
||
|
|
where = f"index >= '{beg_dt}' & index <= '{end_dt}'"
|
||
|
|
result = store.select("df", where=where)
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
# with iterator, full range
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
|
||
|
|
expected = tm.makeTimeDataFrame(100064, "S")
|
||
|
|
_maybe_remove(store, "df")
|
||
|
|
store.append("df", expected)
|
||
|
|
|
||
|
|
beg_dt = expected.index[0]
|
||
|
|
end_dt = expected.index[-1]
|
||
|
|
|
||
|
|
# select w/iterator and no where clause works
|
||
|
|
results = list(store.select("df", chunksize=chunksize))
|
||
|
|
result = concat(results)
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
# select w/iterator and where clause, single term, begin of range
|
||
|
|
where = f"index >= '{beg_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
result = concat(results)
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
# select w/iterator and where clause, single term, end of range
|
||
|
|
where = f"index <= '{end_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
result = concat(results)
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
# select w/iterator and where clause, inclusive range
|
||
|
|
where = f"index >= '{beg_dt}' & index <= '{end_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
result = concat(results)
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
|
||
|
|
def test_select_iterator_non_complete_8014(setup_path):
|
||
|
|
|
||
|
|
# GH 8014
|
||
|
|
# using iterator and where clause
|
||
|
|
chunksize = 1e4
|
||
|
|
|
||
|
|
# with iterator, non complete range
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
|
||
|
|
expected = tm.makeTimeDataFrame(100064, "S")
|
||
|
|
_maybe_remove(store, "df")
|
||
|
|
store.append("df", expected)
|
||
|
|
|
||
|
|
beg_dt = expected.index[1]
|
||
|
|
end_dt = expected.index[-2]
|
||
|
|
|
||
|
|
# select w/iterator and where clause, single term, begin of range
|
||
|
|
where = f"index >= '{beg_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
result = concat(results)
|
||
|
|
rexpected = expected[expected.index >= beg_dt]
|
||
|
|
tm.assert_frame_equal(rexpected, result)
|
||
|
|
|
||
|
|
# select w/iterator and where clause, single term, end of range
|
||
|
|
where = f"index <= '{end_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
result = concat(results)
|
||
|
|
rexpected = expected[expected.index <= end_dt]
|
||
|
|
tm.assert_frame_equal(rexpected, result)
|
||
|
|
|
||
|
|
# select w/iterator and where clause, inclusive range
|
||
|
|
where = f"index >= '{beg_dt}' & index <= '{end_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
result = concat(results)
|
||
|
|
rexpected = expected[(expected.index >= beg_dt) & (expected.index <= end_dt)]
|
||
|
|
tm.assert_frame_equal(rexpected, result)
|
||
|
|
|
||
|
|
# with iterator, empty where
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
|
||
|
|
expected = tm.makeTimeDataFrame(100064, "S")
|
||
|
|
_maybe_remove(store, "df")
|
||
|
|
store.append("df", expected)
|
||
|
|
|
||
|
|
end_dt = expected.index[-1]
|
||
|
|
|
||
|
|
# select w/iterator and where clause, single term, begin of range
|
||
|
|
where = f"index > '{end_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
assert 0 == len(results)
|
||
|
|
|
||
|
|
|
||
|
|
def test_select_iterator_many_empty_frames(setup_path):
|
||
|
|
|
||
|
|
# GH 8014
|
||
|
|
# using iterator and where clause can return many empty
|
||
|
|
# frames.
|
||
|
|
chunksize = 10_000
|
||
|
|
|
||
|
|
# with iterator, range limited to the first chunk
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
|
||
|
|
expected = tm.makeTimeDataFrame(100000, "S")
|
||
|
|
_maybe_remove(store, "df")
|
||
|
|
store.append("df", expected)
|
||
|
|
|
||
|
|
beg_dt = expected.index[0]
|
||
|
|
end_dt = expected.index[chunksize - 1]
|
||
|
|
|
||
|
|
# select w/iterator and where clause, single term, begin of range
|
||
|
|
where = f"index >= '{beg_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
result = concat(results)
|
||
|
|
rexpected = expected[expected.index >= beg_dt]
|
||
|
|
tm.assert_frame_equal(rexpected, result)
|
||
|
|
|
||
|
|
# select w/iterator and where clause, single term, end of range
|
||
|
|
where = f"index <= '{end_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
|
||
|
|
assert len(results) == 1
|
||
|
|
result = concat(results)
|
||
|
|
rexpected = expected[expected.index <= end_dt]
|
||
|
|
tm.assert_frame_equal(rexpected, result)
|
||
|
|
|
||
|
|
# select w/iterator and where clause, inclusive range
|
||
|
|
where = f"index >= '{beg_dt}' & index <= '{end_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
|
||
|
|
# should be 1, is 10
|
||
|
|
assert len(results) == 1
|
||
|
|
result = concat(results)
|
||
|
|
rexpected = expected[(expected.index >= beg_dt) & (expected.index <= end_dt)]
|
||
|
|
tm.assert_frame_equal(rexpected, result)
|
||
|
|
|
||
|
|
# select w/iterator and where clause which selects
|
||
|
|
# *nothing*.
|
||
|
|
#
|
||
|
|
# To be consistent with Python idiom I suggest this should
|
||
|
|
# return [] e.g. `for e in []: print True` never prints
|
||
|
|
# True.
|
||
|
|
|
||
|
|
where = f"index <= '{beg_dt}' & index >= '{end_dt}'"
|
||
|
|
results = list(store.select("df", where=where, chunksize=chunksize))
|
||
|
|
|
||
|
|
# should be []
|
||
|
|
assert len(results) == 0
|
||
|
|
|
||
|
|
|
||
|
|
def test_frame_select(setup_path):
|
||
|
|
|
||
|
|
df = tm.makeTimeDataFrame()
|
||
|
|
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
store.put("frame", df, format="table")
|
||
|
|
date = df.index[len(df) // 2]
|
||
|
|
|
||
|
|
crit1 = Term("index>=date")
|
||
|
|
assert crit1.env.scope["date"] == date
|
||
|
|
|
||
|
|
crit2 = "columns=['A', 'D']"
|
||
|
|
crit3 = "columns=A"
|
||
|
|
|
||
|
|
result = store.select("frame", [crit1, crit2])
|
||
|
|
expected = df.loc[date:, ["A", "D"]]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = store.select("frame", [crit3])
|
||
|
|
expected = df.loc[:, ["A"]]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
# invalid terms
|
||
|
|
df = tm.makeTimeDataFrame()
|
||
|
|
store.append("df_time", df)
|
||
|
|
msg = "could not convert string to Timestamp"
|
||
|
|
with pytest.raises(ValueError, match=msg):
|
||
|
|
store.select("df_time", "index>0")
|
||
|
|
|
||
|
|
# can't select if not written as table
|
||
|
|
# store['frame'] = df
|
||
|
|
# with pytest.raises(ValueError):
|
||
|
|
# store.select('frame', [crit1, crit2])
|
||
|
|
|
||
|
|
|
||
|
|
def test_frame_select_complex(setup_path):
|
||
|
|
# select via complex criteria
|
||
|
|
|
||
|
|
df = tm.makeTimeDataFrame()
|
||
|
|
df["string"] = "foo"
|
||
|
|
df.loc[df.index[0:4], "string"] = "bar"
|
||
|
|
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
store.put("df", df, format="table", data_columns=["string"])
|
||
|
|
|
||
|
|
# empty
|
||
|
|
result = store.select("df", 'index>df.index[3] & string="bar"')
|
||
|
|
expected = df.loc[(df.index > df.index[3]) & (df.string == "bar")]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = store.select("df", 'index>df.index[3] & string="foo"')
|
||
|
|
expected = df.loc[(df.index > df.index[3]) & (df.string == "foo")]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
# or
|
||
|
|
result = store.select("df", 'index>df.index[3] | string="bar"')
|
||
|
|
expected = df.loc[(df.index > df.index[3]) | (df.string == "bar")]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = store.select(
|
||
|
|
"df", '(index>df.index[3] & index<=df.index[6]) | string="bar"'
|
||
|
|
)
|
||
|
|
expected = df.loc[
|
||
|
|
((df.index > df.index[3]) & (df.index <= df.index[6]))
|
||
|
|
| (df.string == "bar")
|
||
|
|
]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
# invert
|
||
|
|
result = store.select("df", 'string!="bar"')
|
||
|
|
expected = df.loc[df.string != "bar"]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
# invert not implemented in numexpr :(
|
||
|
|
msg = "cannot use an invert condition when passing to numexpr"
|
||
|
|
with pytest.raises(NotImplementedError, match=msg):
|
||
|
|
store.select("df", '~(string="bar")')
|
||
|
|
|
||
|
|
# invert ok for filters
|
||
|
|
result = store.select("df", "~(columns=['A','B'])")
|
||
|
|
expected = df.loc[:, df.columns.difference(["A", "B"])]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
# in
|
||
|
|
result = store.select("df", "index>df.index[3] & columns in ['A','B']")
|
||
|
|
expected = df.loc[df.index > df.index[3]].reindex(columns=["A", "B"])
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
|
||
|
|
def test_frame_select_complex2():
|
||
|
|
|
||
|
|
with ensure_clean_path(["params.hdf", "hist.hdf"]) as paths:
|
||
|
|
|
||
|
|
pp, hh = paths
|
||
|
|
|
||
|
|
# use non-trivial selection criteria
|
||
|
|
params = DataFrame({"A": [1, 1, 2, 2, 3]})
|
||
|
|
params.to_hdf(pp, "df", mode="w", format="table", data_columns=["A"])
|
||
|
|
|
||
|
|
selection = read_hdf(pp, "df", where="A=[2,3]")
|
||
|
|
hist = DataFrame(
|
||
|
|
np.random.randn(25, 1),
|
||
|
|
columns=["data"],
|
||
|
|
index=MultiIndex.from_tuples(
|
||
|
|
[(i, j) for i in range(5) for j in range(5)], names=["l1", "l2"]
|
||
|
|
),
|
||
|
|
)
|
||
|
|
|
||
|
|
hist.to_hdf(hh, "df", mode="w", format="table")
|
||
|
|
|
||
|
|
expected = read_hdf(hh, "df", where="l1=[2, 3, 4]")
|
||
|
|
|
||
|
|
# scope with list like
|
||
|
|
l0 = selection.index.tolist() # noqa:F841
|
||
|
|
store = HDFStore(hh)
|
||
|
|
result = store.select("df", where="l1=l0")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
store.close()
|
||
|
|
|
||
|
|
result = read_hdf(hh, "df", where="l1=l0")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
# index
|
||
|
|
index = selection.index # noqa:F841
|
||
|
|
result = read_hdf(hh, "df", where="l1=index")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = read_hdf(hh, "df", where="l1=selection.index")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = read_hdf(hh, "df", where="l1=selection.index.tolist()")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = read_hdf(hh, "df", where="l1=list(selection.index)")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
# scope with index
|
||
|
|
store = HDFStore(hh)
|
||
|
|
|
||
|
|
result = store.select("df", where="l1=index")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = store.select("df", where="l1=selection.index")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = store.select("df", where="l1=selection.index.tolist()")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = store.select("df", where="l1=list(selection.index)")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
store.close()
|
||
|
|
|
||
|
|
|
||
|
|
def test_invalid_filtering(setup_path):
|
||
|
|
|
||
|
|
# can't use more than one filter (atm)
|
||
|
|
|
||
|
|
df = tm.makeTimeDataFrame()
|
||
|
|
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
store.put("df", df, format="table")
|
||
|
|
|
||
|
|
msg = "unable to collapse Joint Filters"
|
||
|
|
# not implemented
|
||
|
|
with pytest.raises(NotImplementedError, match=msg):
|
||
|
|
store.select("df", "columns=['A'] | columns=['B']")
|
||
|
|
|
||
|
|
# in theory we could deal with this
|
||
|
|
with pytest.raises(NotImplementedError, match=msg):
|
||
|
|
store.select("df", "columns=['A','B'] & columns=['C']")
|
||
|
|
|
||
|
|
|
||
|
|
def test_string_select(setup_path):
|
||
|
|
# GH 2973
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
|
||
|
|
df = tm.makeTimeDataFrame()
|
||
|
|
|
||
|
|
# test string ==/!=
|
||
|
|
df["x"] = "none"
|
||
|
|
df.loc[df.index[2:7], "x"] = ""
|
||
|
|
|
||
|
|
store.append("df", df, data_columns=["x"])
|
||
|
|
|
||
|
|
result = store.select("df", "x=none")
|
||
|
|
expected = df[df.x == "none"]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = store.select("df", "x!=none")
|
||
|
|
expected = df[df.x != "none"]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
df2 = df.copy()
|
||
|
|
df2.loc[df2.x == "", "x"] = np.nan
|
||
|
|
|
||
|
|
store.append("df2", df2, data_columns=["x"])
|
||
|
|
result = store.select("df2", "x!=none")
|
||
|
|
expected = df2[isna(df2.x)]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
# int ==/!=
|
||
|
|
df["int"] = 1
|
||
|
|
df.loc[df.index[2:7], "int"] = 2
|
||
|
|
|
||
|
|
store.append("df3", df, data_columns=["int"])
|
||
|
|
|
||
|
|
result = store.select("df3", "int=2")
|
||
|
|
expected = df[df.int == 2]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
result = store.select("df3", "int!=2")
|
||
|
|
expected = df[df.int != 2]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
|
||
|
|
def test_select_as_multiple(setup_path):
|
||
|
|
|
||
|
|
df1 = tm.makeTimeDataFrame()
|
||
|
|
df2 = tm.makeTimeDataFrame().rename(columns="{}_2".format)
|
||
|
|
df2["foo"] = "bar"
|
||
|
|
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
|
||
|
|
msg = "keys must be a list/tuple"
|
||
|
|
# no tables stored
|
||
|
|
with pytest.raises(TypeError, match=msg):
|
||
|
|
store.select_as_multiple(None, where=["A>0", "B>0"], selector="df1")
|
||
|
|
|
||
|
|
store.append("df1", df1, data_columns=["A", "B"])
|
||
|
|
store.append("df2", df2)
|
||
|
|
|
||
|
|
# exceptions
|
||
|
|
with pytest.raises(TypeError, match=msg):
|
||
|
|
store.select_as_multiple(None, where=["A>0", "B>0"], selector="df1")
|
||
|
|
|
||
|
|
with pytest.raises(TypeError, match=msg):
|
||
|
|
store.select_as_multiple([None], where=["A>0", "B>0"], selector="df1")
|
||
|
|
|
||
|
|
msg = "'No object named df3 in the file'"
|
||
|
|
with pytest.raises(KeyError, match=msg):
|
||
|
|
store.select_as_multiple(
|
||
|
|
["df1", "df3"], where=["A>0", "B>0"], selector="df1"
|
||
|
|
)
|
||
|
|
|
||
|
|
with pytest.raises(KeyError, match=msg):
|
||
|
|
store.select_as_multiple(["df3"], where=["A>0", "B>0"], selector="df1")
|
||
|
|
|
||
|
|
with pytest.raises(KeyError, match="'No object named df4 in the file'"):
|
||
|
|
store.select_as_multiple(
|
||
|
|
["df1", "df2"], where=["A>0", "B>0"], selector="df4"
|
||
|
|
)
|
||
|
|
|
||
|
|
# default select
|
||
|
|
result = store.select("df1", ["A>0", "B>0"])
|
||
|
|
expected = store.select_as_multiple(
|
||
|
|
["df1"], where=["A>0", "B>0"], selector="df1"
|
||
|
|
)
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
expected = store.select_as_multiple("df1", where=["A>0", "B>0"], selector="df1")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
# multiple
|
||
|
|
result = store.select_as_multiple(
|
||
|
|
["df1", "df2"], where=["A>0", "B>0"], selector="df1"
|
||
|
|
)
|
||
|
|
expected = concat([df1, df2], axis=1)
|
||
|
|
expected = expected[(expected.A > 0) & (expected.B > 0)]
|
||
|
|
tm.assert_frame_equal(result, expected, check_freq=False)
|
||
|
|
# FIXME: 2021-01-20 this is failing with freq None vs 4B on some builds
|
||
|
|
|
||
|
|
# multiple (diff selector)
|
||
|
|
result = store.select_as_multiple(
|
||
|
|
["df1", "df2"], where="index>df2.index[4]", selector="df2"
|
||
|
|
)
|
||
|
|
expected = concat([df1, df2], axis=1)
|
||
|
|
expected = expected[5:]
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
# test exception for diff rows
|
||
|
|
store.append("df3", tm.makeTimeDataFrame(nper=50))
|
||
|
|
msg = "all tables must have exactly the same nrows!"
|
||
|
|
with pytest.raises(ValueError, match=msg):
|
||
|
|
store.select_as_multiple(
|
||
|
|
["df1", "df3"], where=["A>0", "B>0"], selector="df1"
|
||
|
|
)
|
||
|
|
|
||
|
|
|
||
|
|
def test_nan_selection_bug_4858(setup_path):
|
||
|
|
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
|
||
|
|
df = DataFrame({"cols": range(6), "values": range(6)}, dtype="float64")
|
||
|
|
df["cols"] = (df["cols"] + 10).apply(str)
|
||
|
|
df.iloc[0] = np.nan
|
||
|
|
|
||
|
|
expected = DataFrame(
|
||
|
|
{"cols": ["13.0", "14.0", "15.0"], "values": [3.0, 4.0, 5.0]},
|
||
|
|
index=[3, 4, 5],
|
||
|
|
)
|
||
|
|
|
||
|
|
# write w/o the index on that particular column
|
||
|
|
store.append("df", df, data_columns=True, index=["cols"])
|
||
|
|
result = store.select("df", where="values>2.0")
|
||
|
|
tm.assert_frame_equal(result, expected)
|
||
|
|
|
||
|
|
|
||
|
|
def test_query_with_nested_special_character(setup_path):
|
||
|
|
df = DataFrame(
|
||
|
|
{
|
||
|
|
"a": ["a", "a", "c", "b", "test & test", "c", "b", "e"],
|
||
|
|
"b": [1, 2, 3, 4, 5, 6, 7, 8],
|
||
|
|
}
|
||
|
|
)
|
||
|
|
expected = df[df.a == "test & test"]
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
store.append("test", df, format="table", data_columns=True)
|
||
|
|
result = store.select("test", 'a = "test & test"')
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
|
||
|
|
def test_query_long_float_literal(setup_path):
|
||
|
|
# GH 14241
|
||
|
|
df = DataFrame({"A": [1000000000.0009, 1000000000.0011, 1000000000.0015]})
|
||
|
|
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
store.append("test", df, format="table", data_columns=True)
|
||
|
|
|
||
|
|
cutoff = 1000000000.0006
|
||
|
|
result = store.select("test", f"A < {cutoff:.4f}")
|
||
|
|
assert result.empty
|
||
|
|
|
||
|
|
cutoff = 1000000000.0010
|
||
|
|
result = store.select("test", f"A > {cutoff:.4f}")
|
||
|
|
expected = df.loc[[1, 2], :]
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
exact = 1000000000.0011
|
||
|
|
result = store.select("test", f"A == {exact:.4f}")
|
||
|
|
expected = df.loc[[1], :]
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
|
||
|
|
def test_query_compare_column_type(setup_path):
|
||
|
|
# GH 15492
|
||
|
|
df = DataFrame(
|
||
|
|
{
|
||
|
|
"date": ["2014-01-01", "2014-01-02"],
|
||
|
|
"real_date": date_range("2014-01-01", periods=2),
|
||
|
|
"float": [1.1, 1.2],
|
||
|
|
"int": [1, 2],
|
||
|
|
},
|
||
|
|
columns=["date", "real_date", "float", "int"],
|
||
|
|
)
|
||
|
|
|
||
|
|
with ensure_clean_store(setup_path) as store:
|
||
|
|
store.append("test", df, format="table", data_columns=True)
|
||
|
|
|
||
|
|
ts = Timestamp("2014-01-01") # noqa:F841
|
||
|
|
result = store.select("test", where="real_date > ts")
|
||
|
|
expected = df.loc[[1], :]
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
for op in ["<", ">", "=="]:
|
||
|
|
# non strings to string column always fail
|
||
|
|
for v in [2.1, True, Timestamp("2014-01-01"), pd.Timedelta(1, "s")]:
|
||
|
|
query = f"date {op} v"
|
||
|
|
msg = f"Cannot compare {v} of type {type(v)} to string column"
|
||
|
|
with pytest.raises(TypeError, match=msg):
|
||
|
|
store.select("test", where=query)
|
||
|
|
|
||
|
|
# strings to other columns must be convertible to type
|
||
|
|
v = "a"
|
||
|
|
for col in ["int", "float", "real_date"]:
|
||
|
|
query = f"{col} {op} v"
|
||
|
|
msg = "could not convert string to "
|
||
|
|
with pytest.raises(ValueError, match=msg):
|
||
|
|
store.select("test", where=query)
|
||
|
|
|
||
|
|
for v, col in zip(
|
||
|
|
["1", "1.1", "2014-01-01"], ["int", "float", "real_date"]
|
||
|
|
):
|
||
|
|
query = f"{col} {op} v"
|
||
|
|
result = store.select("test", where=query)
|
||
|
|
|
||
|
|
if op == "==":
|
||
|
|
expected = df.loc[[0], :]
|
||
|
|
elif op == ">":
|
||
|
|
expected = df.loc[[1], :]
|
||
|
|
else:
|
||
|
|
expected = df.loc[[], :]
|
||
|
|
tm.assert_frame_equal(expected, result)
|
||
|
|
|
||
|
|
|
||
|
|
@pytest.mark.parametrize("where", ["", (), (None,), [], [None]])
|
||
|
|
def test_select_empty_where(where):
|
||
|
|
# GH26610
|
||
|
|
|
||
|
|
df = DataFrame([1, 2, 3])
|
||
|
|
with ensure_clean_path("empty_where.h5") as path:
|
||
|
|
with HDFStore(path) as store:
|
||
|
|
store.put("df", df, "t")
|
||
|
|
result = read_hdf(store, "df", where=where)
|
||
|
|
tm.assert_frame_equal(result, df)
|