[Debian-pan-maintainers] Bug#1082288: tomopy: tests fail with scipy 1.14

[Drew Parsons]

Source: tomopy
Version: 1.15.0+ds1-4
Severity: normal

tomopy is failing tests with scipy 1.14 from experimental, evidently
due to deprecation of interp2d

https://ci.debian.net/packages/t/tomopy/unstable/amd64/51870629/

200s _________________ StripeRemovalTestCase.test_remove_all_stripe _________________
200s 
200s self = <test_tomopy.test_prep.test_stripe.StripeRemovalTestCase testMethod=test_remove_all_stripe>
200s 
200s     def test_remove_all_stripe(self):
200s         mat = np.random.rand(self.size, self.size)
200s         lis_off = np.linspace(0, 1, self.size)
200s         mat_off = np.tile(lis_off, (self.size, 1))
200s         mat[:, self.b:self.e] = 6.0
200s >       mat_corr = srm.remove_all_stripe(
200s             np.expand_dims(mat, 1), 1.5, 5, 3)[:, 0, :]
200s 
200s test/test_tomopy/test_prep/test_stripe.py:135: 
200s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
200s /usr/lib/python3/dist-packages/tomopy/prep/stripe.py:877: in remove_all_stripe
200s     arr = mproc.distribute_jobs(tomo,
200s /usr/lib/python3/dist-packages/tomopy/util/mproc.py:329: in distribute_jobs
200s     _arg_parser(m)
200s /usr/lib/python3/dist-packages/tomopy/util/mproc.py:383: in _arg_parser
200s     result = func(*func_args, **kwargs)
200s /usr/lib/python3/dist-packages/tomopy/prep/stripe.py:890: in _remove_all_stripe
200s     sino = _rs_dead(sino, snr, la_size, matindex)
200s /usr/lib/python3/dist-packages/tomopy/prep/stripe.py:826: in _rs_dead
200s     finter = interpolate.interp2d(listx, listy, matz, kind='linear')
200s _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
200s 
200s self = <scipy.interpolate._interpolate.interp2d object at 0x7f8ebc257440>
200s x = array([ 0,  1,  2,  3,  4,  5,  6, 10, 11, 12, 16, 17, 18, 19, 20, 21, 22,
200s        23, 24, 25, 26, 27, 28, 32, 33, 34, 35, 36, 37, 38, 39, 43, 44, 45,
200s        46, 47, 48, 49, 50, 51, 52, 53, 54, 60, 61, 62, 63])
200s y = array([ 0,  1,  2,  3,  4,  5,  6,  7,  8,  9, 10, 11, 12, 13, 14, 15, 16,
200s        17, 18, 19, 20, 21, 22, 23, 24, 25, ...36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50,
200s        51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63])
200s z = array([[0.58459985, 0.39958706, 0.79842966, ..., 0.20840328, 0.2114965 ,
200s         0.83641935],
200s        [0.61540678, 0.61...08,
200s         0.57549454],
200s        [0.05776019, 0.83921768, 0.88255173, ..., 0.14722156, 0.36112475,
200s         0.12312066]])
200s kind = 'linear', copy = True, bounds_error = False, fill_value = None
200s 
200s     def __init__(self, x, y, z, kind='linear', copy=True, bounds_error=False,
200s                  fill_value=None):
200s >       raise NotImplementedError(err_mesg)
200s E       NotImplementedError: `interp2d` has been removed in SciPy 1.14.0.
200s E       
200s E       For legacy code, nearly bug-for-bug compatible replacements are
200s E       `RectBivariateSpline` on regular grids, and `bisplrep`/`bisplev` for
200s E       scattered 2D data.
200s E       
200s E       In new code, for regular grids use `RegularGridInterpolator` instead.
200s E       For scattered data, prefer `LinearNDInterpolator` or
200s E       `CloughTocher2DInterpolator`.
200s E       
200s E       For more details see
200s E       https://scipy.github.io/devdocs/tutorial/interpolate/interp_transition_guide.html
200s 
200s /usr/lib/python3/dist-packages/scipy/interpolate/_interpolate.py:129: NotImplementedError
...
200s FAILED test/test_tomopy/test_prep/test_stripe.py::StripeRemovalTestCase::test_remove_all_stripe
200s FAILED test/test_tomopy/test_prep/test_stripe.py::StripeRemovalTestCase::test_remove_dead_stripe
200s FAILED test/test_tomopy/test_prep/test_stripe.py::StripeRemovalTestCase::test_remove_stripe_based_interpolation
200s ============ 3 failed, 58 passed, 7 skipped, 147 warnings in 20.39s ============


We've only just recently updated to scipy 1.13, but nevertheless we'll
want to update further to scipy 1.14 before long.