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id node_id number title user state locked assignee milestone comments created_at updated_at ▲ closed_at author_association active_lock_reason draft pull_request body reactions performed_via_github_app state_reason repo type
2203250238 PR_kwDOAMm_X85qh2s8 8867 Avoid in-place multiplication of a large value to an array with small integer dtype Illviljan 14371165 closed 0     3 2024-03-22T20:22:22Z 2024-03-29T15:26:38Z 2024-03-29T15:26:38Z MEMBER   0 pydata/xarray/pulls/8867

Upstream numpy has become a bit more particular with which types you can use for inplace operations. This PR fixes ``` __ TestImshow.test_imshow_rgb_values_in_valid_range __

self = <xarray.tests.test_plot.TestImshow object at 0x7f88320c2780>

def test_imshow_rgb_values_in_valid_range(self) -> None:
    da = DataArray(np.arange(75, dtype="uint8").reshape((5, 5, 3)))
    _, ax = plt.subplots()
  out = da.plot.imshow(ax=ax).get_array()

/home/runner/work/xarray/xarray/xarray/tests/test_plot.py:2034:


/home/runner/work/xarray/xarray/xarray/plot/accessor.py:421: in imshow return dataarray_plot.imshow(self._da, args, kwargs) /home/runner/work/xarray/xarray/xarray/plot/dataarray_plot.py:1601: in newplotfunc primitive = plotfunc( /home/runner/work/xarray/xarray/xarray/plot/dataarray_plot.py:1853: in imshow alpha = 255


self = masked_array( data=[[[1], [1], [1], [1], [1]],

    [[1],
     [1],
...,
     [1],
     [1],
     [1],
     [1]]],

mask=False, fill_value=np.int64(999999), dtype=uint8) other = 255

def __imul__(self, other):
    """
    Multiply self by other in-place.

    """
    m = getmask(other)
    if self._mask is nomask:
        if m is not nomask and m.any():
            self._mask = make_mask_none(self.shape, self.dtype)
            self._mask += m
    elif m is not nomask:
        self._mask += m
    other_data = getdata(other)
    other_data = np.where(self._mask, other_data.dtype.type(1), other_data)
  self._data.__imul__(other_data)

E numpy._core._exceptions._UFuncOutputCastingError: Cannot cast ufunc 'multiply' output from dtype('int64') to dtype('uint8') with casting rule 'same_kind'

/home/runner/micromamba/envs/xarray-tests/lib/python3.12/site-packages/numpy/ma/core.py:4415: UFuncTypeError ```

Some curious behaviors seen while debugging: ```python alpha = np.array([1], dtype=np.int8) alpha *= 255 repr(alpha) # 'array([-1], dtype=int8)'

alpha = np.array([1], dtype=np.int16) alpha *= 255 repr(alpha) # 'array([255], dtype=int16)' ```

xref: #8844

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    xarray 13221727 pull
2034462507 PR_kwDOAMm_X85hniLB 8535 Filter null values before plotting Illviljan 14371165 closed 0     3 2023-12-10T17:31:27Z 2023-12-13T15:44:55Z 2023-12-13T15:44:55Z MEMBER   0 pydata/xarray/pulls/8535

I noticed that seaborn's plot was responding much faster than xarray's version with the same data. Turn's out seaborn drops any nulls: https://github.com/mwaskom/seaborn/blob/056413d7393e3daec597d430c076e45938d53376/seaborn/relational.py#L399

  • [x] Tests added
  • [x] User visible changes (including notable bug fixes) are documented in whats-new.rst
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    xarray 13221727 pull
1901520970 PR_kwDOAMm_X85amcNE 8203 Add T_DuckArray type hint to Variable.data Illviljan 14371165 closed 0     3 2023-09-18T18:33:50Z 2023-09-19T17:41:28Z 2023-09-19T15:23:25Z MEMBER   0 pydata/xarray/pulls/8203

The typing of Variable.data has been the very wide Variable.data: Any because of the difficulties defining the typing of a duckarray.

This has led to confusion in downstream functions that uses .data. Sometimes arguments uses Any, np.typing.ArrayLike, np.ndarray or dask array typing which is unnecessarily narrow when xarray also supports for example sparse arrays or cupy arrays.

This PR is a start at cleaning this up by defining a T_DuckArray typevar that symbolizes an array api compliant array.

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1638194068 PR_kwDOAMm_X85MxT6K 7667 Pull Request Labeler - Undo workaround sync-labels bug Illviljan 14371165 closed 0     3 2023-03-23T19:45:31Z 2023-03-23T20:25:47Z 2023-03-23T20:23:03Z MEMBER   0 pydata/xarray/pulls/7667

Seems https://github.com/actions/labeler/issues/112 is fixed. So using false should work.

xref: #7431

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1490160140 PR_kwDOAMm_X85FGOVk 7374 Improve performance for backend datetime handling Illviljan 14371165 closed 0     3 2022-12-11T16:01:05Z 2023-01-18T22:45:36Z 2023-01-13T14:50:53Z MEMBER   0 pydata/xarray/pulls/7374

Was hunting some low-hanging performance fruits when reading in files.

  • Use Variable(..., fastpath=True) for cases when a Variable has been unpacked and modified slightly.
  • Don't check if variable is variable in decode_cf_variable
  • Don't import DataArray until necessary in as_compatible_data.
  • Add typing to touched files to make sure only Variables are used.

  • [ ] Closes #xxxx

  • [ ] Tests added
  • [ ] User visible changes (including notable bug fixes) are documented in whats-new.rst
  • [ ] New functions/methods are listed in api.rst
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1447049720 PR_kwDOAMm_X85CyQio 7285 Switch to T_DataArray in .coords Illviljan 14371165 closed 0     3 2022-11-13T19:22:35Z 2022-11-23T17:48:25Z 2022-11-22T17:02:09Z MEMBER   0 pydata/xarray/pulls/7285

.coords were still using DataArray types switch to T_DataArray instead.

  • [x] Fixes mypy error seen in #7277
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1376126962 PR_kwDOAMm_X84_G-4G 7046 Add helper for setting axis limits in facetgrid Illviljan 14371165 closed 0     3 2022-09-16T15:47:17Z 2022-09-26T16:54:04Z 2022-09-25T15:29:01Z MEMBER   0 pydata/xarray/pulls/7046

This PR adds a helper method that sets the same axis limits for all plots in a facetgrid. Helpful when * wanting specific limits for all plots. * you want to make sure all data is visible by simply using the method without any inputs. Which is not certain if sharex/sharey isn't used, relevant when using 3d plots as they don't work.

Split up from #6778.

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1035496539 PR_kwDOAMm_X84tpNcv 5896 Use importlib.resources to load files Illviljan 14371165 closed 0     3 2021-10-25T19:32:30Z 2022-08-12T09:05:51Z 2021-10-25T21:18:18Z MEMBER   1 pydata/xarray/pulls/5896

Following: https://importlib-resources.readthedocs.io/en/latest/migration.html#pkg-resources-resource-string

  • [ ] Closes #xxxx
  • [ ] Tests added
  • [ ] Passes pre-commit run --all-files
  • [ ] User visible changes (including notable bug fixes) are documented in whats-new.rst
  • [ ] New functions/methods are listed in api.rst
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1326509734 PR_kwDOAMm_X848ikDG 6871 Handle None in assert_valid_xy Illviljan 14371165 closed 0     3 2022-08-02T23:37:19Z 2022-08-12T08:59:59Z 2022-08-03T22:08:45Z MEMBER   0 pydata/xarray/pulls/6871

Reduce diffs in #6778. * Handle None as the error message suggest should be possible * Add some typing while at it.

mypy noticed that Hashable cannot use ", ".join-method so forcing them to str instead. Should be the same problem in #6856 but Frozen returns Any instead of Hashable for some reason.

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1022061409 PR_kwDOAMm_X84s_Lme 5849 Simplify transpose in xr.dot Illviljan 14371165 closed 0     3 2021-10-10T18:45:41Z 2021-10-11T06:16:05Z 2021-10-11T06:16:05Z MEMBER   0 pydata/xarray/pulls/5849

Minor change inspired by #5365.

  • [x] Passes pre-commit run --all-files
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919595236 MDExOlB1bGxSZXF1ZXN0NjY4ODk3OTc0 5464 Allow plotting categorical data Illviljan 14371165 closed 0     3 2021-06-12T15:51:34Z 2021-07-18T21:19:21Z 2021-06-21T17:45:39Z MEMBER   0 pydata/xarray/pulls/5464
  • [x] Closes #4260
  • [x] Tests added
  • [x] Passes pre-commit run --all-files
  • [x] User visible changes (including notable bug fixes) are documented in whats-new.rst

python a = xr.DataArray( [0, 1, 2], dims=("dim_1"), coords=dict(dim_1=(["dim_1"], ["u", "v", "w"])), ) a.plot()

python a = xr.DataArray( [[0, 1, 2], [3, 4, 5]], dims=("dim_0", "dim_1"), coords=dict(dim_0=(["dim_0"], [0, 1]), dim_1=(["dim_1"], ["u", "v", "w"])), ) a.plot()

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912816822 MDExOlB1bGxSZXF1ZXN0NjYyOTQzMzE1 5443 Fix invalid suggestion in error in apply_variable_ufunc Illviljan 14371165 closed 0     3 2021-06-06T12:45:22Z 2021-07-02T16:06:47Z 2021-06-06T17:42:46Z MEMBER   0 pydata/xarray/pulls/5443

The suggestion appears to be copy/paste-friendly but the format was slightly off.

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933989796 MDExOlB1bGxSZXF1ZXN0NjgxMTEzMTI4 5556 Test test_missing.py without cftime installed Illviljan 14371165 closed 0     3 2021-06-30T18:31:08Z 2021-07-02T16:05:53Z 2021-07-01T04:47:12Z MEMBER   0 pydata/xarray/pulls/5556

The checks that didn't install cftime skipped the entire test_missing.py. Because cftime is also imported when importing the list of calenders _CFTIME_CALENDERS.

Added also skips for the cases that assumed cftime was installed so they are correctly skipped.

  • [x] Passes pre-commit run --all-files
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916608188 MDExOlB1bGxSZXF1ZXN0NjY2MjU4ODU0 5456 Use checks from .pycompat in more places Illviljan 14371165 closed 0     3 2021-06-09T19:34:46Z 2021-06-09T20:25:04Z 2021-06-09T20:01:24Z MEMBER   0 pydata/xarray/pulls/5456

Found a few more places where modules are being imported just for version checking.

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780426518 MDExOlB1bGxSZXF1ZXN0NTUwMzIxOTU1 4771 Always force dask arrays to float in missing.interp_func Illviljan 14371165 closed 0     3 2021-01-06T10:18:55Z 2021-05-18T18:17:30Z 2021-01-12T10:15:28Z MEMBER   0 pydata/xarray/pulls/4771

scipy.interpolate.interp1d always forces float so make sure that da.blockwise understands that as well.

  • [x] Workaround for #4770
  • [x] Tests added
  • [x] Passes isort . && black . && mypy . && flake8
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792639470 MDU6SXNzdWU3OTI2Mzk0NzA= 4839 Coordinate attributes are dropped when interpolating datasets Illviljan 14371165 closed 0     3 2021-01-23T20:05:33Z 2021-04-27T07:00:08Z 2021-04-27T07:00:08Z MEMBER      

What happened: When I was interpolating datasets I noticed that the coordinate variables disappeared.

What you expected to happen: Coordinate attributes should be retained just like variables are.

Minimal Complete Verifiable Example:

```python import numpy as np import xarray as xr

names = np.core.defchararray.add("long_variable_name", np.arange(0, 2).astype(str)) coords = dict(time=np.array([0, 1])) data_vars = dict() for v in names: data_vars[v] = xr.Variable( "time", np.array([0, 1], dtype=int), attrs=dict(unit="kg") ) ds1 = xr.Dataset(data_vars=data_vars, coords=coords) ds1.attrs = { k: 2 for k in np.core.defchararray.add("attr_", np.arange(0, 3).astype(str)) } ds1.time.attrs.update(unit="s")

Print time:

ds1.time Out[115]: <xarray.DataArray 'time' (time: 2)> array([0, 1]) Coordinates: * time (time) int32 0 1 Attributes: unit: s

Interpolate:

ds1 = ds1.interp( time=np.array([0, 0.5, 1, 2]), assume_sorted=True, method="linear", kwargs=dict(fill_value="extrapolate"), )

Print interpolated time, units are lost:

ds1.time Out[117]: <xarray.DataArray 'time' (time: 4)> array([0. , 0.5, 1. , 2. ]) Coordinates: * time (time) float64 0.0 0.5 1.0 2. ```

Anything else we need to know?:

Environment:

Output of <tt>xr.show_versions()</tt> xr.show_versions() INSTALLED VERSIONS ------------------ commit: None python: 3.8.5 (default, Sep 3 2020, 21:29:08) [MSC v.1916 64 bit (AMD64)] python-bits: 64 OS: Windows OS-release: 10 machine: AMD64 processor: Intel64 Family 6 Model 94 Stepping 3, GenuineIntel byteorder: little libhdf5: 1.10.4 libnetcdf: None xarray: 0.16.2 pandas: 1.2.0 numpy: 1.17.5 scipy: 1.4.1 netCDF4: None pydap: None h5netcdf: None h5py: 2.10.0 Nio: None zarr: None cftime: None nc_time_axis: None PseudoNetCDF: None rasterio: None cfgrib: None iris: None bottleneck: 1.3.2 dask: 2020.12.0 distributed: 2020.12.0 matplotlib: 3.3.2 cartopy: None seaborn: 0.11.1 numbagg: None pint: None setuptools: 51.1.2.post20210112 pip: 20.3.3 conda: 4.9.2 pytest: 6.2.1 IPython: 7.19.0 sphinx: 3.4.3
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  completed xarray 13221727 issue

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