chore: switch to ruff, numpy compat fixes, ignore known test warnings #2124
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Codecov ReportAttention: Patch coverage is
Additional details and impacted files@@ Coverage Diff @@
## develop #2124 +/- ##
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- Coverage 73.1% 73.1% -0.1%
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Files 259 259
Lines 59513 59511 -2
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- Hits 43517 43514 -3
- Misses 15996 15997 +1
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langevin-usgs
approved these changes
Mar 14, 2024
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Ruff will do "safe" cleanups like those automatically with |
This was referenced Mar 28, 2024
wpbonelli
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Jun 17, 2024
The docs for `np.where()` (https://numpy.org/doc/stable/reference/generated/numpy.where.html) suggest to prefer `nonzero()` over `where()` without `x` and `y` arguments. In the spirit of defensive programming I included `np.asarray(cond)` even where `cond` is already an array. This PR also fixes a bug I introduced in the model splitter in modflowpy#2124: while E711 (https://www.flake8rules.com/rules/E711.html) dictates comparisons to `None` should use identity rather than equality, this rule should not be applied to NumPy array selection conditions as it will change the semantics: ```shell >>> a = np.array([None, None]) >>> a[a != None] array([], dtype=object) >>> a[a is not None] array([[None, None]], dtype=object) ``` Unrelatedly, mark `test_mt3d.py::test_mfnwt_keat_uzf()` slow, it should not be included in smoke tests.
wpbonelli
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to wpbonelli/flopy
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Jun 17, 2024
The docs for `np.where()` (https://numpy.org/doc/stable/reference/generated/numpy.where.html) suggest to prefer `nonzero()` over `where()` without `x` and `y` arguments. In the spirit of defensive programming I included `np.asarray(cond)` even where `cond` is already an array. This PR also fixes a bug I introduced in the model splitter in modflowpy#2124: while E711 (https://www.flake8rules.com/rules/E711.html) dictates comparisons to `None` should use identity rather than equality, this rule should not be applied to NumPy array selection conditions as it will change the semantics: ```shell >>> a = np.array([None, None]) >>> a[a != None] array([], dtype=object) >>> a[a is not None] array([[None, None]], dtype=object) ``` Unrelatedly, mark `test_mt3d.py::test_mfnwt_keat_uzf()` slow, it should not be included in smoke tests.
wpbonelli
added a commit
that referenced
this pull request
Jun 17, 2024
The docs for `np.where()` (https://numpy.org/doc/stable/reference/generated/numpy.where.html) suggest to prefer `nonzero()` over `where()` without `x` and `y` arguments. In the spirit of defensive programming I included `np.asarray(cond)` even where `cond` is already an array. This PR also fixes a bug I introduced in the model splitter in #2124: while E711 (https://www.flake8rules.com/rules/E711.html) dictates comparisons to `None` should use identity rather than equality, this rule should not be applied to NumPy array selection conditions as it will change the semantics: >>> a = np.array([None, None]) >>> a[a != None] array([], dtype=object) >>> a[a is not None] array([[None, None]], dtype=object) Unrelatedly, mark `test_mt3d.py::test_mfnwt_keat_uzf()` slow, it should not be included in smoke tests (this was causing the optional dependency CI tests to fail due to timeout). And clean up some unused imports in `conftest.py`.
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pyproject.tomlruff check --select NPY201as suggested here, replace deprecated syntaxnp.float_->np.float64np.NaN->np.nan