"ImportError: cannot import name greycomatrix from skimage.feature" in sct_analyze_texture

[joshuacwnewton]

Issue experienced in our scheduled tests starting yesterday, as well as new PRs (e.g. #4055)

_________ ERROR collecting testing/cli/test_cli_sct_analyze_texture.py _________
ImportError while importing test module '/__w/spinalcordtoolbox/spinalcordtoolbox/testing/cli/test_cli_sct_analyze_texture.py'.
Hint: make sure your test modules/packages have valid Python names.
Traceback:
python/envs/venv_sct/lib/python3.8/importlib/__init__.py:127: in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
testing/cli/test_cli_sct_analyze_texture.py:7: in <module>
    from spinalcordtoolbox.scripts import sct_analyze_texture
spinalcordtoolbox/scripts/sct_analyze_texture.py:17: in <module>
    from skimage.feature import greycomatrix, greycoprops
E   ImportError: cannot import name 'greycomatrix' from 'skimage.feature' (/__w/spinalcordtoolbox/spinalcordtoolbox/python/envs/venv_sct/lib/python3.8/site-packages/skimage/feature/__init__.py)

I presume greycomatrix was deprecated, and skimage updated to a version that removed this feature.

I'll do some more digging shortly. :)

[joshuacwnewton]

skimage=0.20.0 was released yesterday. Its release notes contain the following:

• Remove deprecated functions greycomatrix and greycoprops from skimage.feature (#6583).

The specific commit within that PR is scikit-image/scikit-image@171d34a.

It looks like the deprecation is simply about changing the word grey to gray, so all we'll have to do is update a single letter. 😄