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from __future__ import annotations
import numpy as np
import pandas as pd
import pytest
import xarray as xr
from xarray import DataArray, Dataset, DataTree
from xarray.tests import create_test_data, has_cftime, requires_dask
@pytest.fixture(params=["numpy", pytest.param("dask", marks=requires_dask)])
def backend(request):
return request.param
@pytest.fixture(params=["numbagg", "bottleneck", None])
def compute_backend(request):
if request.param is None:
options = dict(use_bottleneck=False, use_numbagg=False)
elif request.param == "bottleneck":
options = dict(use_bottleneck=True, use_numbagg=False)
elif request.param == "numbagg":
options = dict(use_bottleneck=False, use_numbagg=True)
else:
raise ValueError
with xr.set_options(**options):
yield request.param
@pytest.fixture(params=[1])
def ds(request, backend):
if request.param == 1:
ds = Dataset(
dict(
z1=(["y", "x"], np.random.randn(2, 8)),
z2=(["time", "y"], np.random.randn(10, 2)),
),
dict(
x=("x", np.linspace(0, 1.0, 8)),
time=("time", np.linspace(0, 1.0, 10)),
c=("y", ["a", "b"]),
y=range(2),
),
)
elif request.param == 2:
ds = Dataset(
dict(
z1=(["time", "y"], np.random.randn(10, 2)),
z2=(["time"], np.random.randn(10)),
z3=(["x", "time"], np.random.randn(8, 10)),
),
dict(
x=("x", np.linspace(0, 1.0, 8)),
time=("time", np.linspace(0, 1.0, 10)),
c=("y", ["a", "b"]),
y=range(2),
),
)
elif request.param == 3:
ds = create_test_data()
else:
raise ValueError
if backend == "dask":
return ds.chunk()
return ds
@pytest.fixture(params=[1])
def da(request, backend):
if request.param == 1:
times = pd.date_range("2000-01-01", freq="1D", periods=21)
da = DataArray(
np.random.random((3, 21, 4)),
dims=("a", "time", "x"),
coords=dict(time=times),
)
if request.param == 2:
da = DataArray([0, np.nan, 1, 2, np.nan, 3, 4, 5, np.nan, 6, 7], dims="time")
if request.param == "repeating_ints":
da = DataArray(
np.tile(np.arange(12), 5).reshape(5, 4, 3),
coords={"x": list("abc"), "y": list("defg")},
dims=list("zyx"),
)
if backend == "dask":
return da.chunk()
elif backend == "numpy":
return da
else:
raise ValueError
@pytest.fixture(
params=[
False,
pytest.param(
True, marks=pytest.mark.skipif(not has_cftime, reason="no cftime")
),
]
)
def use_cftime(request):
return request.param
@pytest.fixture(params=[Dataset, DataArray])
def type(request):
return request.param
@pytest.fixture(params=[1])
def d(request, backend, type) -> DataArray | Dataset:
"""
For tests which can test either a DataArray or a Dataset.
"""
result: DataArray | Dataset
if request.param == 1:
ds = Dataset(
dict(
a=(["x", "z"], np.arange(24).reshape(2, 12)),
b=(["y", "z"], np.arange(100, 136).reshape(3, 12).astype(np.float64)),
),
dict(
x=("x", np.linspace(0, 1.0, 2)),
y=range(3),
z=("z", pd.date_range("2000-01-01", periods=12)),
w=("x", ["a", "b"]),
),
)
if type == DataArray:
result = ds["a"].assign_coords(w=ds.coords["w"])
elif type == Dataset:
result = ds
else:
raise ValueError
else:
raise ValueError
if backend == "dask":
return result.chunk()
elif backend == "numpy":
return result
else:
raise ValueError
@pytest.fixture
def byte_attrs_dataset():
"""For testing issue #9407"""
null_byte = b"\x00"
other_bytes = bytes(range(1, 256))
ds = Dataset({"x": 1}, coords={"x_coord": [1]})
ds["x"].attrs["null_byte"] = null_byte
ds["x"].attrs["other_bytes"] = other_bytes
expected = ds.copy()
expected["x"].attrs["null_byte"] = ""
expected["x"].attrs["other_bytes"] = other_bytes.decode(errors="replace")
return {
"input": ds,
"expected": expected,
"h5netcdf_error": r"Invalid value provided for attribute .*: .*\. Null characters .*",
}
@pytest.fixture(scope="module")
def create_test_datatree():
"""
Create a test datatree with this structure:
<xarray.DataTree>
Group: /
│ Dimensions: (y: 3, x: 2)
│ Dimensions without coordinates: y, x
│ Data variables:
│ a (y) int64 24B 6 7 8
│ set0 (x) int64 16B 9 10
├── Group: /set1
│ │ Dimensions: ()
│ │ Data variables:
│ │ a int64 8B 0
│ │ b int64 8B 1
│ ├── Group: /set1/set1
│ └── Group: /set1/set2
├── Group: /set2
│ │ Dimensions: (x: 2)
│ │ Dimensions without coordinates: x
│ │ Data variables:
│ │ a (x) int64 16B 2 3
│ │ b (x) float64 16B 0.1 0.2
│ └── Group: /set2/set1
└── Group: /set3
The structure has deliberately repeated names of tags, variables, and
dimensions in order to better check for bugs caused by name conflicts.
"""
def _create_test_datatree(modify=lambda ds: ds):
set1_data = modify(xr.Dataset({"a": 0, "b": 1}))
set2_data = modify(xr.Dataset({"a": ("x", [2, 3]), "b": ("x", [0.1, 0.2])}))
root_data = modify(xr.Dataset({"a": ("y", [6, 7, 8]), "set0": ("x", [9, 10])}))
root = DataTree.from_dict(
{
"/": root_data,
"/set1": set1_data,
"/set1/set1": None,
"/set1/set2": None,
"/set2": set2_data,
"/set2/set1": None,
"/set3": None,
}
)
return root
return _create_test_datatree
@pytest.fixture(scope="module")
def simple_datatree(create_test_datatree):
"""
Invoke create_test_datatree fixture (callback).
Returns a DataTree.
"""
return create_test_datatree()
@pytest.fixture(params=["s", "ms", "us", "ns"])
def time_unit(request):
return request.param
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