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488 lines
16 KiB
Python
488 lines
16 KiB
Python
from collections import defaultdict
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from datetime import datetime
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from itertools import product
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import numpy as np
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import pytest
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from pandas import (
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NA,
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DataFrame,
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MultiIndex,
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Series,
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array,
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concat,
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merge,
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)
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import pandas._testing as tm
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from pandas.core.algorithms import safe_sort
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import pandas.core.common as com
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from pandas.core.sorting import (
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_decons_group_index,
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get_group_index,
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is_int64_overflow_possible,
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lexsort_indexer,
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nargsort,
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)
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@pytest.fixture
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def left_right():
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low, high, n = -1 << 10, 1 << 10, 1 << 20
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left = DataFrame(
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np.random.default_rng(2).integers(low, high, (n, 7)), columns=list("ABCDEFG")
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)
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left["left"] = left.sum(axis=1)
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# one-2-one match
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i = np.random.default_rng(2).permutation(len(left))
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right = left.iloc[i].copy()
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right.columns = right.columns[:-1].tolist() + ["right"]
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right.index = np.arange(len(right))
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right["right"] *= -1
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return left, right
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class TestSorting:
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@pytest.mark.slow
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def test_int64_overflow(self):
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B = np.concatenate((np.arange(1000), np.arange(1000), np.arange(500)))
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A = np.arange(2500)
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df = DataFrame(
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{
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"A": A,
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"B": B,
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"C": A,
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"D": B,
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"E": A,
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"F": B,
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"G": A,
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"H": B,
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"values": np.random.default_rng(2).standard_normal(2500),
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}
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)
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lg = df.groupby(["A", "B", "C", "D", "E", "F", "G", "H"])
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rg = df.groupby(["H", "G", "F", "E", "D", "C", "B", "A"])
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left = lg.sum()["values"]
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right = rg.sum()["values"]
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exp_index, _ = left.index.sortlevel()
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tm.assert_index_equal(left.index, exp_index)
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exp_index, _ = right.index.sortlevel(0)
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tm.assert_index_equal(right.index, exp_index)
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tups = list(map(tuple, df[["A", "B", "C", "D", "E", "F", "G", "H"]].values))
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tups = com.asarray_tuplesafe(tups)
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expected = df.groupby(tups).sum()["values"]
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for k, v in expected.items():
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assert left[k] == right[k[::-1]]
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assert left[k] == v
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assert len(left) == len(right)
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def test_int64_overflow_groupby_large_range(self):
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# GH9096
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values = range(55109)
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data = DataFrame.from_dict({"a": values, "b": values, "c": values, "d": values})
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grouped = data.groupby(["a", "b", "c", "d"])
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assert len(grouped) == len(values)
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@pytest.mark.parametrize("agg", ["mean", "median"])
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def test_int64_overflow_groupby_large_df_shuffled(self, agg):
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rs = np.random.default_rng(2)
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arr = rs.integers(-1 << 12, 1 << 12, (1 << 15, 5))
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i = rs.choice(len(arr), len(arr) * 4)
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arr = np.vstack((arr, arr[i])) # add some duplicate rows
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i = rs.permutation(len(arr))
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arr = arr[i] # shuffle rows
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df = DataFrame(arr, columns=list("abcde"))
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df["jim"], df["joe"] = np.zeros((2, len(df)))
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gr = df.groupby(list("abcde"))
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# verify this is testing what it is supposed to test!
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assert is_int64_overflow_possible(gr._grouper.shape)
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mi = MultiIndex.from_arrays(
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[ar.ravel() for ar in np.array_split(np.unique(arr, axis=0), 5, axis=1)],
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names=list("abcde"),
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)
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res = DataFrame(
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np.zeros((len(mi), 2)), columns=["jim", "joe"], index=mi
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).sort_index()
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tm.assert_frame_equal(getattr(gr, agg)(), res)
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@pytest.mark.parametrize(
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"order, na_position, exp",
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[
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[
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True,
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"last",
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list(range(5, 105)) + list(range(5)) + list(range(105, 110)),
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],
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[
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True,
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"first",
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list(range(5)) + list(range(105, 110)) + list(range(5, 105)),
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],
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[
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False,
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"last",
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list(range(104, 4, -1)) + list(range(5)) + list(range(105, 110)),
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],
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[
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False,
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"first",
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list(range(5)) + list(range(105, 110)) + list(range(104, 4, -1)),
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],
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],
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)
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def test_lexsort_indexer(self, order, na_position, exp):
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keys = [[np.nan] * 5 + list(range(100)) + [np.nan] * 5]
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result = lexsort_indexer(keys, orders=order, na_position=na_position)
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tm.assert_numpy_array_equal(result, np.array(exp, dtype=np.intp))
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@pytest.mark.parametrize(
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"ascending, na_position, exp",
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[
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[
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True,
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"last",
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list(range(5, 105)) + list(range(5)) + list(range(105, 110)),
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],
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[
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True,
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"first",
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list(range(5)) + list(range(105, 110)) + list(range(5, 105)),
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],
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[
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False,
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"last",
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list(range(104, 4, -1)) + list(range(5)) + list(range(105, 110)),
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],
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[
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False,
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"first",
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list(range(5)) + list(range(105, 110)) + list(range(104, 4, -1)),
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],
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],
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)
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def test_nargsort(self, ascending, na_position, exp):
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# list places NaNs last, np.array(..., dtype="O") may not place NaNs first
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items = np.array([np.nan] * 5 + list(range(100)) + [np.nan] * 5, dtype="O")
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# mergesort is the most difficult to get right because we want it to be
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# stable.
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# According to numpy/core/tests/test_multiarray, """The number of
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# sorted items must be greater than ~50 to check the actual algorithm
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# because quick and merge sort fall over to insertion sort for small
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# arrays."""
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result = nargsort(
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items, kind="mergesort", ascending=ascending, na_position=na_position
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)
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tm.assert_numpy_array_equal(result, np.array(exp), check_dtype=False)
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class TestMerge:
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def test_int64_overflow_outer_merge(self):
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# #2690, combinatorial explosion
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df1 = DataFrame(
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np.random.default_rng(2).standard_normal((1000, 7)),
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columns=list("ABCDEF") + ["G1"],
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)
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df2 = DataFrame(
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np.random.default_rng(3).standard_normal((1000, 7)),
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columns=list("ABCDEF") + ["G2"],
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)
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result = merge(df1, df2, how="outer")
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assert len(result) == 2000
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@pytest.mark.slow
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def test_int64_overflow_check_sum_col(self, left_right):
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left, right = left_right
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out = merge(left, right, how="outer")
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assert len(out) == len(left)
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tm.assert_series_equal(out["left"], -out["right"], check_names=False)
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result = out.iloc[:, :-2].sum(axis=1)
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tm.assert_series_equal(out["left"], result, check_names=False)
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assert result.name is None
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@pytest.mark.slow
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@pytest.mark.parametrize("how", ["left", "right", "outer", "inner"])
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def test_int64_overflow_how_merge(self, left_right, how):
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left, right = left_right
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out = merge(left, right, how="outer")
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out.sort_values(out.columns.tolist(), inplace=True)
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out.index = np.arange(len(out))
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tm.assert_frame_equal(out, merge(left, right, how=how, sort=True))
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@pytest.mark.slow
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def test_int64_overflow_sort_false_order(self, left_right):
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left, right = left_right
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# check that left merge w/ sort=False maintains left frame order
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out = merge(left, right, how="left", sort=False)
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tm.assert_frame_equal(left, out[left.columns.tolist()])
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out = merge(right, left, how="left", sort=False)
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tm.assert_frame_equal(right, out[right.columns.tolist()])
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@pytest.mark.slow
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@pytest.mark.parametrize("how", ["left", "right", "outer", "inner"])
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@pytest.mark.parametrize("sort", [True, False])
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def test_int64_overflow_one_to_many_none_match(self, how, sort):
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# one-2-many/none match
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low, high, n = -1 << 10, 1 << 10, 1 << 11
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left = DataFrame(
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np.random.default_rng(2).integers(low, high, (n, 7)).astype("int64"),
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columns=list("ABCDEFG"),
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)
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# confirm that this is checking what it is supposed to check
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shape = left.apply(Series.nunique).values
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assert is_int64_overflow_possible(shape)
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# add duplicates to left frame
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left = concat([left, left], ignore_index=True)
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right = DataFrame(
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np.random.default_rng(3).integers(low, high, (n // 2, 7)).astype("int64"),
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columns=list("ABCDEFG"),
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)
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# add duplicates & overlap with left to the right frame
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i = np.random.default_rng(4).choice(len(left), n)
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right = concat([right, right, left.iloc[i]], ignore_index=True)
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left["left"] = np.random.default_rng(2).standard_normal(len(left))
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right["right"] = np.random.default_rng(2).standard_normal(len(right))
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# shuffle left & right frames
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i = np.random.default_rng(5).permutation(len(left))
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left = left.iloc[i].copy()
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left.index = np.arange(len(left))
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i = np.random.default_rng(6).permutation(len(right))
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right = right.iloc[i].copy()
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right.index = np.arange(len(right))
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# manually compute outer merge
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ldict, rdict = defaultdict(list), defaultdict(list)
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for idx, row in left.set_index(list("ABCDEFG")).iterrows():
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ldict[idx].append(row["left"])
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for idx, row in right.set_index(list("ABCDEFG")).iterrows():
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rdict[idx].append(row["right"])
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vals = []
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for k, lval in ldict.items():
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rval = rdict.get(k, [np.nan])
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for lv, rv in product(lval, rval):
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vals.append(
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k
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+ (
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lv,
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rv,
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)
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)
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for k, rval in rdict.items():
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if k not in ldict:
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vals.extend(
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k
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+ (
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np.nan,
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rv,
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)
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for rv in rval
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)
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def align(df):
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df = df.sort_values(df.columns.tolist())
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df.index = np.arange(len(df))
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return df
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out = DataFrame(vals, columns=list("ABCDEFG") + ["left", "right"])
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out = align(out)
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jmask = {
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"left": out["left"].notna(),
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"right": out["right"].notna(),
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"inner": out["left"].notna() & out["right"].notna(),
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"outer": np.ones(len(out), dtype="bool"),
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}
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mask = jmask[how]
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frame = align(out[mask].copy())
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assert mask.all() ^ mask.any() or how == "outer"
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res = merge(left, right, how=how, sort=sort)
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if sort:
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kcols = list("ABCDEFG")
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tm.assert_frame_equal(
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res[kcols].copy(), res[kcols].sort_values(kcols, kind="mergesort")
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)
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# as in GH9092 dtypes break with outer/right join
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# 2021-12-18: dtype does not break anymore
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tm.assert_frame_equal(frame, align(res))
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@pytest.mark.parametrize(
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"codes_list, shape",
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[
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[
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[
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np.tile([0, 1, 2, 3, 0, 1, 2, 3], 100).astype(np.int64),
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np.tile([0, 2, 4, 3, 0, 1, 2, 3], 100).astype(np.int64),
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np.tile([5, 1, 0, 2, 3, 0, 5, 4], 100).astype(np.int64),
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],
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(4, 5, 6),
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],
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[
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[
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np.tile(np.arange(10000, dtype=np.int64), 5),
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np.tile(np.arange(10000, dtype=np.int64), 5),
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],
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(10000, 10000),
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],
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],
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)
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def test_decons(codes_list, shape):
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group_index = get_group_index(codes_list, shape, sort=True, xnull=True)
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codes_list2 = _decons_group_index(group_index, shape)
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for a, b in zip(codes_list, codes_list2):
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tm.assert_numpy_array_equal(a, b)
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class TestSafeSort:
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@pytest.mark.parametrize(
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"arg, exp",
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[
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[[3, 1, 2, 0, 4], [0, 1, 2, 3, 4]],
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[
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np.array(list("baaacb"), dtype=object),
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np.array(list("aaabbc"), dtype=object),
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],
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[[], []],
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],
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)
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def test_basic_sort(self, arg, exp):
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result = safe_sort(np.array(arg))
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expected = np.array(exp)
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tm.assert_numpy_array_equal(result, expected)
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@pytest.mark.parametrize("verify", [True, False])
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@pytest.mark.parametrize(
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"codes, exp_codes",
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[
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[[0, 1, 1, 2, 3, 0, -1, 4], [3, 1, 1, 2, 0, 3, -1, 4]],
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[[], []],
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],
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)
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def test_codes(self, verify, codes, exp_codes):
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values = np.array([3, 1, 2, 0, 4])
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expected = np.array([0, 1, 2, 3, 4])
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result, result_codes = safe_sort(
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values, codes, use_na_sentinel=True, verify=verify
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)
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expected_codes = np.array(exp_codes, dtype=np.intp)
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tm.assert_numpy_array_equal(result, expected)
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tm.assert_numpy_array_equal(result_codes, expected_codes)
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def test_codes_out_of_bound(self):
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values = np.array([3, 1, 2, 0, 4])
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expected = np.array([0, 1, 2, 3, 4])
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# out of bound indices
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codes = [0, 101, 102, 2, 3, 0, 99, 4]
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result, result_codes = safe_sort(values, codes, use_na_sentinel=True)
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expected_codes = np.array([3, -1, -1, 2, 0, 3, -1, 4], dtype=np.intp)
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tm.assert_numpy_array_equal(result, expected)
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tm.assert_numpy_array_equal(result_codes, expected_codes)
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def test_mixed_integer(self):
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values = np.array(["b", 1, 0, "a", 0, "b"], dtype=object)
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result = safe_sort(values)
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expected = np.array([0, 0, 1, "a", "b", "b"], dtype=object)
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tm.assert_numpy_array_equal(result, expected)
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def test_mixed_integer_with_codes(self):
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values = np.array(["b", 1, 0, "a"], dtype=object)
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codes = [0, 1, 2, 3, 0, -1, 1]
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result, result_codes = safe_sort(values, codes)
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expected = np.array([0, 1, "a", "b"], dtype=object)
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expected_codes = np.array([3, 1, 0, 2, 3, -1, 1], dtype=np.intp)
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tm.assert_numpy_array_equal(result, expected)
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tm.assert_numpy_array_equal(result_codes, expected_codes)
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def test_unsortable(self):
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# GH 13714
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arr = np.array([1, 2, datetime.now(), 0, 3], dtype=object)
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msg = "'[<>]' not supported between instances of .*"
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with pytest.raises(TypeError, match=msg):
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safe_sort(arr)
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@pytest.mark.parametrize(
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"arg, codes, err, msg",
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[
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[1, None, TypeError, "Only np.ndarray, ExtensionArray, and Index"],
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[np.array([0, 1, 2]), 1, TypeError, "Only list-like objects or None"],
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[np.array([0, 1, 2, 1]), [0, 1], ValueError, "values should be unique"],
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],
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)
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def test_exceptions(self, arg, codes, err, msg):
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with pytest.raises(err, match=msg):
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safe_sort(values=arg, codes=codes)
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@pytest.mark.parametrize(
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"arg, exp", [[[1, 3, 2], [1, 2, 3]], [[1, 3, np.nan, 2], [1, 2, 3, np.nan]]]
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)
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def test_extension_array(self, arg, exp):
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a = array(arg, dtype="Int64")
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result = safe_sort(a)
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expected = array(exp, dtype="Int64")
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tm.assert_extension_array_equal(result, expected)
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@pytest.mark.parametrize("verify", [True, False])
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def test_extension_array_codes(self, verify):
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a = array([1, 3, 2], dtype="Int64")
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result, codes = safe_sort(a, [0, 1, -1, 2], use_na_sentinel=True, verify=verify)
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expected_values = array([1, 2, 3], dtype="Int64")
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expected_codes = np.array([0, 2, -1, 1], dtype=np.intp)
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tm.assert_extension_array_equal(result, expected_values)
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tm.assert_numpy_array_equal(codes, expected_codes)
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def test_mixed_str_null(nulls_fixture):
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values = np.array(["b", nulls_fixture, "a", "b"], dtype=object)
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result = safe_sort(values)
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expected = np.array(["a", "b", "b", nulls_fixture], dtype=object)
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tm.assert_numpy_array_equal(result, expected)
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def test_safe_sort_multiindex():
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# GH#48412
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arr1 = Series([2, 1, NA, NA], dtype="Int64")
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arr2 = [2, 1, 3, 3]
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midx = MultiIndex.from_arrays([arr1, arr2])
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result = safe_sort(midx)
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expected = MultiIndex.from_arrays(
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[Series([1, 2, NA, NA], dtype="Int64"), [1, 2, 3, 3]]
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)
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tm.assert_index_equal(result, expected)
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