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test_concat.py
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772 lines (665 loc) · 28.4 KB
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from copy import deepcopy
import numpy as np
import pandas as pd
import pytest
from xarray import DataArray, Dataset, Variable, concat
from xarray.core import dtypes, merge
from . import (
InaccessibleArray,
assert_array_equal,
assert_equal,
assert_identical,
requires_dask,
)
from .test_dataset import create_test_data
def test_concat_compat():
ds1 = Dataset(
{
"has_x_y": (("y", "x"), [[1, 2]]),
"has_x": ("x", [1, 2]),
"no_x_y": ("z", [1, 2]),
},
coords={"x": [0, 1], "y": [0], "z": [-1, -2]},
)
ds2 = Dataset(
{
"has_x_y": (("y", "x"), [[3, 4]]),
"has_x": ("x", [1, 2]),
"no_x_y": (("q", "z"), [[1, 2]]),
},
coords={"x": [0, 1], "y": [1], "z": [-1, -2], "q": [0]},
)
result = concat([ds1, ds2], dim="y", data_vars="minimal", compat="broadcast_equals")
assert_equal(ds2.no_x_y, result.no_x_y.transpose())
for var in ["has_x", "no_x_y"]:
assert "y" not in result[var].dims and "y" not in result[var].coords
with pytest.raises(
ValueError, match=r"coordinates in some datasets but not others"
):
concat([ds1, ds2], dim="q")
with pytest.raises(ValueError, match=r"'q' is not present in all datasets"):
concat([ds2, ds1], dim="q")
class TestConcatDataset:
@pytest.fixture
def data(self):
return create_test_data().drop_dims("dim3")
def rectify_dim_order(self, data, dataset):
# return a new dataset with all variable dimensions transposed into
# the order in which they are found in `data`
return Dataset(
{k: v.transpose(*data[k].dims) for k, v in dataset.data_vars.items()},
dataset.coords,
attrs=dataset.attrs,
)
@pytest.mark.parametrize("coords", ["different", "minimal"])
@pytest.mark.parametrize("dim", ["dim1", "dim2"])
def test_concat_simple(self, data, dim, coords):
datasets = [g for _, g in data.groupby(dim, squeeze=False)]
assert_identical(data, concat(datasets, dim, coords=coords))
def test_concat_merge_variables_present_in_some_datasets(self, data):
# coordinates present in some datasets but not others
ds1 = Dataset(data_vars={"a": ("y", [0.1])}, coords={"x": 0.1})
ds2 = Dataset(data_vars={"a": ("y", [0.2])}, coords={"z": 0.2})
actual = concat([ds1, ds2], dim="y", coords="minimal")
expected = Dataset({"a": ("y", [0.1, 0.2])}, coords={"x": 0.1, "z": 0.2})
assert_identical(expected, actual)
# data variables present in some datasets but not others
split_data = [data.isel(dim1=slice(3)), data.isel(dim1=slice(3, None))]
data0, data1 = deepcopy(split_data)
data1["foo"] = ("bar", np.random.randn(10))
actual = concat([data0, data1], "dim1")
expected = data.copy().assign(foo=data1.foo)
assert_identical(expected, actual)
def test_concat_2(self, data):
dim = "dim2"
datasets = [g for _, g in data.groupby(dim, squeeze=True)]
concat_over = [k for k, v in data.coords.items() if dim in v.dims and k != dim]
actual = concat(datasets, data[dim], coords=concat_over)
assert_identical(data, self.rectify_dim_order(data, actual))
@pytest.mark.parametrize("coords", ["different", "minimal", "all"])
@pytest.mark.parametrize("dim", ["dim1", "dim2"])
def test_concat_coords_kwarg(self, data, dim, coords):
data = data.copy(deep=True)
# make sure the coords argument behaves as expected
data.coords["extra"] = ("dim4", np.arange(3))
datasets = [g for _, g in data.groupby(dim, squeeze=True)]
actual = concat(datasets, data[dim], coords=coords)
if coords == "all":
expected = np.array([data["extra"].values for _ in range(data.dims[dim])])
assert_array_equal(actual["extra"].values, expected)
else:
assert_equal(data["extra"], actual["extra"])
def test_concat(self, data):
split_data = [
data.isel(dim1=slice(3)),
data.isel(dim1=3),
data.isel(dim1=slice(4, None)),
]
assert_identical(data, concat(split_data, "dim1"))
def test_concat_dim_precedence(self, data):
# verify that the dim argument takes precedence over
# concatenating dataset variables of the same name
dim = (2 * data["dim1"]).rename("dim1")
datasets = [g for _, g in data.groupby("dim1", squeeze=False)]
expected = data.copy()
expected["dim1"] = dim
assert_identical(expected, concat(datasets, dim))
def test_concat_data_vars(self):
data = Dataset({"foo": ("x", np.random.randn(10))})
objs = [data.isel(x=slice(5)), data.isel(x=slice(5, None))]
for data_vars in ["minimal", "different", "all", [], ["foo"]]:
actual = concat(objs, dim="x", data_vars=data_vars)
assert_identical(data, actual)
def test_concat_coords(self):
data = Dataset({"foo": ("x", np.random.randn(10))})
expected = data.assign_coords(c=("x", [0] * 5 + [1] * 5))
objs = [
data.isel(x=slice(5)).assign_coords(c=0),
data.isel(x=slice(5, None)).assign_coords(c=1),
]
for coords in ["different", "all", ["c"]]:
actual = concat(objs, dim="x", coords=coords)
assert_identical(expected, actual)
for coords in ["minimal", []]:
with pytest.raises(merge.MergeError, match="conflicting values"):
concat(objs, dim="x", coords=coords)
def test_concat_constant_index(self):
# GH425
ds1 = Dataset({"foo": 1.5}, {"y": 1})
ds2 = Dataset({"foo": 2.5}, {"y": 1})
expected = Dataset({"foo": ("y", [1.5, 2.5]), "y": [1, 1]})
for mode in ["different", "all", ["foo"]]:
actual = concat([ds1, ds2], "y", data_vars=mode)
assert_identical(expected, actual)
with pytest.raises(merge.MergeError, match="conflicting values"):
# previously dim="y", and raised error which makes no sense.
# "foo" has dimension "y" so minimal should concatenate it?
concat([ds1, ds2], "new_dim", data_vars="minimal")
def test_concat_size0(self):
data = create_test_data()
split_data = [data.isel(dim1=slice(0, 0)), data]
actual = concat(split_data, "dim1")
assert_identical(data, actual)
actual = concat(split_data[::-1], "dim1")
assert_identical(data, actual)
def test_concat_autoalign(self):
ds1 = Dataset({"foo": DataArray([1, 2], coords=[("x", [1, 2])])})
ds2 = Dataset({"foo": DataArray([1, 2], coords=[("x", [1, 3])])})
actual = concat([ds1, ds2], "y")
expected = Dataset(
{
"foo": DataArray(
[[1, 2, np.nan], [1, np.nan, 2]],
dims=["y", "x"],
coords={"x": [1, 2, 3]},
)
}
)
assert_identical(expected, actual)
def test_concat_errors(self):
data = create_test_data()
split_data = [data.isel(dim1=slice(3)), data.isel(dim1=slice(3, None))]
with pytest.raises(ValueError, match=r"must supply at least one"):
concat([], "dim1")
with pytest.raises(ValueError, match=r"Cannot specify both .*='different'"):
concat(
[data, data], dim="concat_dim", data_vars="different", compat="override"
)
with pytest.raises(ValueError, match=r"must supply at least one"):
concat([], "dim1")
with pytest.raises(ValueError, match=r"are not coordinates"):
concat([data, data], "new_dim", coords=["not_found"])
with pytest.raises(ValueError, match=r"global attributes not"):
data0, data1 = deepcopy(split_data)
data1.attrs["foo"] = "bar"
concat([data0, data1], "dim1", compat="identical")
assert_identical(data, concat([data0, data1], "dim1", compat="equals"))
with pytest.raises(ValueError, match=r"compat.* invalid"):
concat(split_data, "dim1", compat="foobar")
with pytest.raises(ValueError, match=r"unexpected value for"):
concat([data, data], "new_dim", coords="foobar")
with pytest.raises(
ValueError, match=r"coordinate in some datasets but not others"
):
concat([Dataset({"x": 0}), Dataset({"x": [1]})], dim="z")
with pytest.raises(
ValueError, match=r"coordinate in some datasets but not others"
):
concat([Dataset({"x": 0}), Dataset({}, {"x": 1})], dim="z")
def test_concat_join_kwarg(self):
ds1 = Dataset({"a": (("x", "y"), [[0]])}, coords={"x": [0], "y": [0]})
ds2 = Dataset({"a": (("x", "y"), [[0]])}, coords={"x": [1], "y": [0.0001]})
expected = {}
expected["outer"] = Dataset(
{"a": (("x", "y"), [[0, np.nan], [np.nan, 0]])},
{"x": [0, 1], "y": [0, 0.0001]},
)
expected["inner"] = Dataset(
{"a": (("x", "y"), [[], []])}, {"x": [0, 1], "y": []}
)
expected["left"] = Dataset(
{"a": (("x", "y"), np.array([0, np.nan], ndmin=2).T)},
coords={"x": [0, 1], "y": [0]},
)
expected["right"] = Dataset(
{"a": (("x", "y"), np.array([np.nan, 0], ndmin=2).T)},
coords={"x": [0, 1], "y": [0.0001]},
)
expected["override"] = Dataset(
{"a": (("x", "y"), np.array([0, 0], ndmin=2).T)},
coords={"x": [0, 1], "y": [0]},
)
with pytest.raises(ValueError, match=r"indexes along dimension 'y'"):
actual = concat([ds1, ds2], join="exact", dim="x")
for join in expected:
actual = concat([ds1, ds2], join=join, dim="x")
assert_equal(actual, expected[join])
# regression test for #3681
actual = concat(
[ds1.drop_vars("x"), ds2.drop_vars("x")], join="override", dim="y"
)
expected = Dataset(
{"a": (("x", "y"), np.array([0, 0], ndmin=2))}, coords={"y": [0, 0.0001]}
)
assert_identical(actual, expected)
@pytest.mark.parametrize(
"combine_attrs, var1_attrs, var2_attrs, expected_attrs, expect_exception",
[
(
"no_conflicts",
{"a": 1, "b": 2},
{"a": 1, "c": 3},
{"a": 1, "b": 2, "c": 3},
False,
),
("no_conflicts", {"a": 1, "b": 2}, {}, {"a": 1, "b": 2}, False),
("no_conflicts", {}, {"a": 1, "c": 3}, {"a": 1, "c": 3}, False),
(
"no_conflicts",
{"a": 1, "b": 2},
{"a": 4, "c": 3},
{"a": 1, "b": 2, "c": 3},
True,
),
("drop", {"a": 1, "b": 2}, {"a": 1, "c": 3}, {}, False),
("identical", {"a": 1, "b": 2}, {"a": 1, "b": 2}, {"a": 1, "b": 2}, False),
("identical", {"a": 1, "b": 2}, {"a": 1, "c": 3}, {"a": 1, "b": 2}, True),
(
"override",
{"a": 1, "b": 2},
{"a": 4, "b": 5, "c": 3},
{"a": 1, "b": 2},
False,
),
(
"drop_conflicts",
{"a": 41, "b": 42, "c": 43},
{"b": 2, "c": 43, "d": 44},
{"a": 41, "c": 43, "d": 44},
False,
),
(
lambda attrs, context: {"a": -1, "b": 0, "c": 1} if any(attrs) else {},
{"a": 41, "b": 42, "c": 43},
{"b": 2, "c": 43, "d": 44},
{"a": -1, "b": 0, "c": 1},
False,
),
],
)
def test_concat_combine_attrs_kwarg(
self, combine_attrs, var1_attrs, var2_attrs, expected_attrs, expect_exception
):
ds1 = Dataset({"a": ("x", [0])}, coords={"x": [0]}, attrs=var1_attrs)
ds2 = Dataset({"a": ("x", [0])}, coords={"x": [1]}, attrs=var2_attrs)
if expect_exception:
with pytest.raises(ValueError, match=f"combine_attrs='{combine_attrs}'"):
concat([ds1, ds2], dim="x", combine_attrs=combine_attrs)
else:
actual = concat([ds1, ds2], dim="x", combine_attrs=combine_attrs)
expected = Dataset(
{"a": ("x", [0, 0])}, {"x": [0, 1]}, attrs=expected_attrs
)
assert_identical(actual, expected)
@pytest.mark.parametrize(
"combine_attrs, attrs1, attrs2, expected_attrs, expect_exception",
[
(
"no_conflicts",
{"a": 1, "b": 2},
{"a": 1, "c": 3},
{"a": 1, "b": 2, "c": 3},
False,
),
("no_conflicts", {"a": 1, "b": 2}, {}, {"a": 1, "b": 2}, False),
("no_conflicts", {}, {"a": 1, "c": 3}, {"a": 1, "c": 3}, False),
(
"no_conflicts",
{"a": 1, "b": 2},
{"a": 4, "c": 3},
{"a": 1, "b": 2, "c": 3},
True,
),
("drop", {"a": 1, "b": 2}, {"a": 1, "c": 3}, {}, False),
("identical", {"a": 1, "b": 2}, {"a": 1, "b": 2}, {"a": 1, "b": 2}, False),
("identical", {"a": 1, "b": 2}, {"a": 1, "c": 3}, {"a": 1, "b": 2}, True),
(
"override",
{"a": 1, "b": 2},
{"a": 4, "b": 5, "c": 3},
{"a": 1, "b": 2},
False,
),
(
"drop_conflicts",
{"a": 41, "b": 42, "c": 43},
{"b": 2, "c": 43, "d": 44},
{"a": 41, "c": 43, "d": 44},
False,
),
(
lambda attrs, context: {"a": -1, "b": 0, "c": 1} if any(attrs) else {},
{"a": 41, "b": 42, "c": 43},
{"b": 2, "c": 43, "d": 44},
{"a": -1, "b": 0, "c": 1},
False,
),
],
)
def test_concat_combine_attrs_kwarg_variables(
self, combine_attrs, attrs1, attrs2, expected_attrs, expect_exception
):
"""check that combine_attrs is used on data variables and coords"""
ds1 = Dataset({"a": ("x", [0], attrs1)}, coords={"x": ("x", [0], attrs1)})
ds2 = Dataset({"a": ("x", [0], attrs2)}, coords={"x": ("x", [1], attrs2)})
if expect_exception:
with pytest.raises(ValueError, match=f"combine_attrs='{combine_attrs}'"):
concat([ds1, ds2], dim="x", combine_attrs=combine_attrs)
else:
actual = concat([ds1, ds2], dim="x", combine_attrs=combine_attrs)
expected = Dataset(
{"a": ("x", [0, 0], expected_attrs)},
{"x": ("x", [0, 1], expected_attrs)},
)
assert_identical(actual, expected)
def test_concat_promote_shape(self):
# mixed dims within variables
objs = [Dataset({}, {"x": 0}), Dataset({"x": [1]})]
actual = concat(objs, "x")
expected = Dataset({"x": [0, 1]})
assert_identical(actual, expected)
objs = [Dataset({"x": [0]}), Dataset({}, {"x": 1})]
actual = concat(objs, "x")
assert_identical(actual, expected)
# mixed dims between variables
objs = [Dataset({"x": [2], "y": 3}), Dataset({"x": [4], "y": 5})]
actual = concat(objs, "x")
expected = Dataset({"x": [2, 4], "y": ("x", [3, 5])})
assert_identical(actual, expected)
# mixed dims in coord variable
objs = [Dataset({"x": [0]}, {"y": -1}), Dataset({"x": [1]}, {"y": ("x", [-2])})]
actual = concat(objs, "x")
expected = Dataset({"x": [0, 1]}, {"y": ("x", [-1, -2])})
assert_identical(actual, expected)
# scalars with mixed lengths along concat dim -- values should repeat
objs = [Dataset({"x": [0]}, {"y": -1}), Dataset({"x": [1, 2]}, {"y": -2})]
actual = concat(objs, "x")
expected = Dataset({"x": [0, 1, 2]}, {"y": ("x", [-1, -2, -2])})
assert_identical(actual, expected)
# broadcast 1d x 1d -> 2d
objs = [
Dataset({"z": ("x", [-1])}, {"x": [0], "y": [0]}),
Dataset({"z": ("y", [1])}, {"x": [1], "y": [0]}),
]
actual = concat(objs, "x")
expected = Dataset({"z": (("x", "y"), [[-1], [1]])}, {"x": [0, 1], "y": [0]})
assert_identical(actual, expected)
def test_concat_do_not_promote(self):
# GH438
objs = [
Dataset({"y": ("t", [1])}, {"x": 1, "t": [0]}),
Dataset({"y": ("t", [2])}, {"x": 1, "t": [0]}),
]
expected = Dataset({"y": ("t", [1, 2])}, {"x": 1, "t": [0, 0]})
actual = concat(objs, "t")
assert_identical(expected, actual)
objs = [
Dataset({"y": ("t", [1])}, {"x": 1, "t": [0]}),
Dataset({"y": ("t", [2])}, {"x": 2, "t": [0]}),
]
with pytest.raises(ValueError):
concat(objs, "t", coords="minimal")
def test_concat_dim_is_variable(self):
objs = [Dataset({"x": 0}), Dataset({"x": 1})]
coord = Variable("y", [3, 4])
expected = Dataset({"x": ("y", [0, 1]), "y": [3, 4]})
actual = concat(objs, coord)
assert_identical(actual, expected)
def test_concat_multiindex(self):
x = pd.MultiIndex.from_product([[1, 2, 3], ["a", "b"]])
expected = Dataset({"x": x})
actual = concat(
[expected.isel(x=slice(2)), expected.isel(x=slice(2, None))], "x"
)
assert expected.equals(actual)
assert isinstance(actual.x.to_index(), pd.MultiIndex)
@pytest.mark.parametrize("fill_value", [dtypes.NA, 2, 2.0, {"a": 2, "b": 1}])
def test_concat_fill_value(self, fill_value):
datasets = [
Dataset({"a": ("x", [2, 3]), "b": ("x", [-2, 1]), "x": [1, 2]}),
Dataset({"a": ("x", [1, 2]), "b": ("x", [3, -1]), "x": [0, 1]}),
]
if fill_value == dtypes.NA:
# if we supply the default, we expect the missing value for a
# float array
fill_value_a = fill_value_b = np.nan
elif isinstance(fill_value, dict):
fill_value_a = fill_value["a"]
fill_value_b = fill_value["b"]
else:
fill_value_a = fill_value_b = fill_value
expected = Dataset(
{
"a": (("t", "x"), [[fill_value_a, 2, 3], [1, 2, fill_value_a]]),
"b": (("t", "x"), [[fill_value_b, -2, 1], [3, -1, fill_value_b]]),
},
{"x": [0, 1, 2]},
)
actual = concat(datasets, dim="t", fill_value=fill_value)
assert_identical(actual, expected)
@pytest.mark.parametrize("dtype", [str, bytes])
@pytest.mark.parametrize("dim", ["x1", "x2"])
def test_concat_str_dtype(self, dtype, dim):
data = np.arange(4).reshape([2, 2])
da1 = Dataset(
{
"data": (["x1", "x2"], data),
"x1": [0, 1],
"x2": np.array(["a", "b"], dtype=dtype),
}
)
da2 = Dataset(
{
"data": (["x1", "x2"], data),
"x1": np.array([1, 2]),
"x2": np.array(["c", "d"], dtype=dtype),
}
)
actual = concat([da1, da2], dim=dim)
assert np.issubdtype(actual.x2.dtype, dtype)
class TestConcatDataArray:
def test_concat(self):
ds = Dataset(
{
"foo": (["x", "y"], np.random.random((2, 3))),
"bar": (["x", "y"], np.random.random((2, 3))),
},
{"x": [0, 1]},
)
foo = ds["foo"]
bar = ds["bar"]
# from dataset array:
expected = DataArray(
np.array([foo.values, bar.values]),
dims=["w", "x", "y"],
coords={"x": [0, 1]},
)
actual = concat([foo, bar], "w")
assert_equal(expected, actual)
# from iteration:
grouped = [g for _, g in foo.groupby("x")]
stacked = concat(grouped, ds["x"])
assert_identical(foo, stacked)
# with an index as the 'dim' argument
stacked = concat(grouped, pd.Index(ds["x"], name="x"))
assert_identical(foo, stacked)
actual = concat([foo[0], foo[1]], pd.Index([0, 1])).reset_coords(drop=True)
expected = foo[:2].rename({"x": "concat_dim"})
assert_identical(expected, actual)
actual = concat([foo[0], foo[1]], [0, 1]).reset_coords(drop=True)
expected = foo[:2].rename({"x": "concat_dim"})
assert_identical(expected, actual)
with pytest.raises(ValueError, match=r"not identical"):
concat([foo, bar], dim="w", compat="identical")
with pytest.raises(ValueError, match=r"not a valid argument"):
concat([foo, bar], dim="w", data_vars="minimal")
def test_concat_encoding(self):
# Regression test for GH1297
ds = Dataset(
{
"foo": (["x", "y"], np.random.random((2, 3))),
"bar": (["x", "y"], np.random.random((2, 3))),
},
{"x": [0, 1]},
)
foo = ds["foo"]
foo.encoding = {"complevel": 5}
ds.encoding = {"unlimited_dims": "x"}
assert concat([foo, foo], dim="x").encoding == foo.encoding
assert concat([ds, ds], dim="x").encoding == ds.encoding
@requires_dask
def test_concat_lazy(self):
import dask.array as da
arrays = [
DataArray(
da.from_array(InaccessibleArray(np.zeros((3, 3))), 3), dims=["x", "y"]
)
for _ in range(2)
]
# should not raise
combined = concat(arrays, dim="z")
assert combined.shape == (2, 3, 3)
assert combined.dims == ("z", "x", "y")
@pytest.mark.parametrize("fill_value", [dtypes.NA, 2, 2.0])
def test_concat_fill_value(self, fill_value):
foo = DataArray([1, 2], coords=[("x", [1, 2])])
bar = DataArray([1, 2], coords=[("x", [1, 3])])
if fill_value == dtypes.NA:
# if we supply the default, we expect the missing value for a
# float array
fill_value = np.nan
expected = DataArray(
[[1, 2, fill_value], [1, fill_value, 2]],
dims=["y", "x"],
coords={"x": [1, 2, 3]},
)
actual = concat((foo, bar), dim="y", fill_value=fill_value)
assert_identical(actual, expected)
def test_concat_join_kwarg(self):
ds1 = Dataset(
{"a": (("x", "y"), [[0]])}, coords={"x": [0], "y": [0]}
).to_array()
ds2 = Dataset(
{"a": (("x", "y"), [[0]])}, coords={"x": [1], "y": [0.0001]}
).to_array()
expected = {}
expected["outer"] = Dataset(
{"a": (("x", "y"), [[0, np.nan], [np.nan, 0]])},
{"x": [0, 1], "y": [0, 0.0001]},
)
expected["inner"] = Dataset(
{"a": (("x", "y"), [[], []])}, {"x": [0, 1], "y": []}
)
expected["left"] = Dataset(
{"a": (("x", "y"), np.array([0, np.nan], ndmin=2).T)},
coords={"x": [0, 1], "y": [0]},
)
expected["right"] = Dataset(
{"a": (("x", "y"), np.array([np.nan, 0], ndmin=2).T)},
coords={"x": [0, 1], "y": [0.0001]},
)
expected["override"] = Dataset(
{"a": (("x", "y"), np.array([0, 0], ndmin=2).T)},
coords={"x": [0, 1], "y": [0]},
)
with pytest.raises(ValueError, match=r"indexes along dimension 'y'"):
actual = concat([ds1, ds2], join="exact", dim="x")
for join in expected:
actual = concat([ds1, ds2], join=join, dim="x")
assert_equal(actual, expected[join].to_array())
def test_concat_combine_attrs_kwarg(self):
da1 = DataArray([0], coords=[("x", [0])], attrs={"b": 42})
da2 = DataArray([0], coords=[("x", [1])], attrs={"b": 42, "c": 43})
expected = {}
expected["drop"] = DataArray([0, 0], coords=[("x", [0, 1])])
expected["no_conflicts"] = DataArray(
[0, 0], coords=[("x", [0, 1])], attrs={"b": 42, "c": 43}
)
expected["override"] = DataArray(
[0, 0], coords=[("x", [0, 1])], attrs={"b": 42}
)
with pytest.raises(ValueError, match=r"combine_attrs='identical'"):
actual = concat([da1, da2], dim="x", combine_attrs="identical")
with pytest.raises(ValueError, match=r"combine_attrs='no_conflicts'"):
da3 = da2.copy(deep=True)
da3.attrs["b"] = 44
actual = concat([da1, da3], dim="x", combine_attrs="no_conflicts")
for combine_attrs in expected:
actual = concat([da1, da2], dim="x", combine_attrs=combine_attrs)
assert_identical(actual, expected[combine_attrs])
@pytest.mark.parametrize("dtype", [str, bytes])
@pytest.mark.parametrize("dim", ["x1", "x2"])
def test_concat_str_dtype(self, dtype, dim):
data = np.arange(4).reshape([2, 2])
da1 = DataArray(
data=data,
dims=["x1", "x2"],
coords={"x1": [0, 1], "x2": np.array(["a", "b"], dtype=dtype)},
)
da2 = DataArray(
data=data,
dims=["x1", "x2"],
coords={"x1": np.array([1, 2]), "x2": np.array(["c", "d"], dtype=dtype)},
)
actual = concat([da1, da2], dim=dim)
assert np.issubdtype(actual.x2.dtype, dtype)
def test_concat_coord_name(self):
da = DataArray([0], dims="a")
da_concat = concat([da, da], dim=DataArray([0, 1], dims="b"))
assert list(da_concat.coords) == ["b"]
da_concat_std = concat([da, da], dim=DataArray([0, 1]))
assert list(da_concat_std.coords) == ["dim_0"]
@pytest.mark.parametrize("attr1", ({"a": {"meta": [10, 20, 30]}}, {"a": [1, 2, 3]}, {}))
@pytest.mark.parametrize("attr2", ({"a": [1, 2, 3]}, {}))
def test_concat_attrs_first_variable(attr1, attr2):
arrs = [
DataArray([[1], [2]], dims=["x", "y"], attrs=attr1),
DataArray([[3], [4]], dims=["x", "y"], attrs=attr2),
]
concat_attrs = concat(arrs, "y").attrs
assert concat_attrs == attr1
def test_concat_merge_single_non_dim_coord():
da1 = DataArray([1, 2, 3], dims="x", coords={"x": [1, 2, 3], "y": 1})
da2 = DataArray([4, 5, 6], dims="x", coords={"x": [4, 5, 6]})
expected = DataArray(range(1, 7), dims="x", coords={"x": range(1, 7), "y": 1})
for coords in ["different", "minimal"]:
actual = concat([da1, da2], "x", coords=coords)
assert_identical(actual, expected)
with pytest.raises(ValueError, match=r"'y' is not present in all datasets."):
concat([da1, da2], dim="x", coords="all")
da1 = DataArray([1, 2, 3], dims="x", coords={"x": [1, 2, 3], "y": 1})
da2 = DataArray([4, 5, 6], dims="x", coords={"x": [4, 5, 6]})
da3 = DataArray([7, 8, 9], dims="x", coords={"x": [7, 8, 9], "y": 1})
for coords in ["different", "all"]:
with pytest.raises(ValueError, match=r"'y' not present in all datasets"):
concat([da1, da2, da3], dim="x")
def test_concat_preserve_coordinate_order():
x = np.arange(0, 5)
y = np.arange(0, 10)
time = np.arange(0, 4)
data = np.zeros((4, 10, 5), dtype=bool)
ds1 = Dataset(
{"data": (["time", "y", "x"], data[0:2])},
coords={"time": time[0:2], "y": y, "x": x},
)
ds2 = Dataset(
{"data": (["time", "y", "x"], data[2:4])},
coords={"time": time[2:4], "y": y, "x": x},
)
expected = Dataset(
{"data": (["time", "y", "x"], data)},
coords={"time": time, "y": y, "x": x},
)
actual = concat([ds1, ds2], dim="time")
# check dimension order
for act, exp in zip(actual.dims, expected.dims):
assert act == exp
assert actual.dims[act] == expected.dims[exp]
# check coordinate order
for act, exp in zip(actual.coords, expected.coords):
assert act == exp
assert_identical(actual.coords[act], expected.coords[exp])
def test_concat_typing_check():
ds = Dataset({"foo": 1}, {"bar": 2})
da = Dataset({"foo": 3}, {"bar": 4}).to_array(dim="foo")
# concatenate a list of non-homogeneous types must raise TypeError
with pytest.raises(
TypeError,
match="The elements in the input list need to be either all 'Dataset's or all 'DataArray's",
):
concat([ds, da], dim="foo")
with pytest.raises(
TypeError,
match="The elements in the input list need to be either all 'Dataset's or all 'DataArray's",
):
concat([da, ds], dim="foo")