pydata / pydata/xarray

Coordinates not deep copy

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bug
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Description

What happened?

The coordinates are not copied if you perform deepcopy for xarray.
This issue was fixed before. I don't see it, for example, in xarray 2022.12.0, but in the latest version the issue is there again.

import xarray as xr

xarr1 = xr.DataArray(
    np.zeros([2]), 
    coords=dict(x=[0.0, 1.0]), # important to use 'float' here! with 'int' it is working fine
    dims=("x")
)
print(xarr1.x.data[0]) # 0.0

xarr2 = xarr1.copy(deep=True)
xarr2.x.data[0] = 45
print(xarr1.x.data[0]) # gives 45

Interesting, that if your coordinates are int, then the issue is gone

What did you expect to happen?
import xarray as xr

xarr1 = xr.DataArray(
    np.zeros([2]), 
    coords=dict(x=[0.0, 1.0]), # important to use 'float' here! with 'int' it is working fine
    dims=("x")
)
print(xarr1.x.data[0]) # 0.0

xarr2 = xarr1.copy(deep=True)
xarr2.x.data[0] = 45
print(xarr1.x.data[0]) # I expect it to be 0.0
Minimal Complete Verifiable Example
import xarray as xr

xarr1 = xr.DataArray(
    np.zeros([2]), 
    coords=dict(x=[0.0, 1.0]), # important to use 'float' here! with 'int' it is working fine
    dims=("x")
)
print(xarr1.x.data[0]) # 0.0

xarr2 = xarr1.copy(deep=True)
xarr2.x.data[0] = 45
print(xarr1.x.data[0]) # gives 45
MVCE confirmation
  • Minimal example — the example is as focused as reasonably possible to demonstrate the underlying issue in xarray.
  • Complete example — the example is self-contained, including all data and the text of any traceback.
  • Verifiable example — the example copy & pastes into an IPython prompt or Binder notebook, returning the result.
  • New issue — a search of GitHub Issues suggests this is not a duplicate.
Relevant log output

No response

Anything else we need to know?

No response

Environment
xarray 2023.1.0

python 3.8.10

Contributor guide

Open the contributing guide

First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Start by running the reported DataArray deep-copy example against the current xarray version and compare the float-coordinate behavior with integer coordinates. Trace the copy path involved in coordinate data and add a regression test showing that changing xarr2.x.data does not change xarr1.x.data; done when the original remains 0.0.

Written by the indexing model from the issue text.

Assessment

Tech stack
numpy, python
Domain
data
Issue type
Bug
Difficulty
3/5
Estimated time
1-2 days
Activity status
Stale
Clarity
Clearly specified
Newbie friendliness
42/100

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