Source: nibabel Version: 5.3.2-2 Severity: normal scipy 1.16 has been uploaded to experimental. nibabel tests are failing with it, possibly due to a change in API.
176s =========================== short test summary info ============================ 176s FAILED nibabel/tests/test_processing.py::test_resample_from_to - Failed: DID ... 176s FAILED nibabel/tests/test_processing.py::test_resample_to_output - Failed: DI... 176s = 2 failed, 5362 passed, 108 skipped, 11 xfailed, 1 xpassed, 26950 warnings in 137.68s (0:02:17) = nibabel is expecting a UserWarning which is not emitted, so test_resample* fails: 176s ___________________________ test_resample_to_output ____________________________ 176s 176s caplog = <_pytest.logging.LogCaptureFixture object at 0x7fb89afd3110> 176s 176s @needs_scipy 176s def test_resample_to_output(caplog): 176s # Test routine to sample images to output space 176s # Image aligned to output axes - no-op 176s data = np.arange(24, dtype='int32').reshape((2, 3, 4)) 176s img = Nifti1Image(data, np.eye(4)) 176s # Check default resampling 176s img2 = resample_to_output(img) 176s assert_array_equal(img2.shape, (2, 3, 4)) 176s assert_array_equal(img2.affine, np.eye(4)) 176s assert_array_equal(img2.dataobj, data) 176s # Check resampling with different voxel size specifications 176s for vox_sizes in (None, 1, [1, 1, 1]): 176s img2 = resample_to_output(img, vox_sizes) 176s assert_array_equal(img2.shape, (2, 3, 4)) 176s assert_array_equal(img2.affine, np.eye(4)) 176s assert_array_equal(img2.dataobj, data) 176s img2 = resample_to_output(img, vox_sizes) 176s # Check 2D works 176s img_2d = Nifti1Image(data[0], np.eye(4)) 176s for vox_sizes in (None, 1, (1, 1), (1, 1, 1)): 176s img3 = resample_to_output(img_2d, vox_sizes) 176s assert_array_equal(img3.shape, (3, 4, 1)) 176s assert_array_equal(img3.affine, np.eye(4)) 176s assert_array_equal(img3.dataobj, data[0][..., None]) 176s # Even 1D 176s img_1d = Nifti1Image(data[0, 0], np.eye(4)) 176s img3 = resample_to_output(img_1d) 176s assert_array_equal(img3.shape, (4, 1, 1)) 176s assert_array_equal(img3.affine, np.eye(4)) 176s assert_array_equal(img3.dataobj, data[0, 0][..., None, None]) 176s # But 4D does not 176s img_4d = Nifti1Image(data.reshape(2, 3, 2, 2), np.eye(4)) 176s with pytest.raises(ValueError): 176s resample_to_output(img_4d) 176s # Run vox2vox_out tests, checking output shape, coordinate transform 176s for in_shape, in_aff, vox, out_shape, out_aff in get_outspace_params(): 176s # Allow for expansion of image shape from < 3D 176s in_n_dim = len(in_shape) 176s if in_n_dim < 3: 176s in_shape = in_shape + (1,) * (3 - in_n_dim) 176s if not vox is None: 176s vox = vox + (1,) * (3 - in_n_dim) 176s assert len(out_shape) == in_n_dim 176s out_shape = out_shape + (1,) * (3 - in_n_dim) 176s img = Nifti1Image(np.ones(in_shape), in_aff) 176s out_img = resample_to_output(img, vox) 176s assert_all_in(in_shape, in_aff, out_img.shape, out_img.affine) 176s assert out_img.shape == out_shape 176s assert_almost_equal(out_img.affine, out_aff) 176s # Check data is as expected with some transforms 176s # Flip first axis 176s out_img = resample_to_output(Nifti1Image(data, np.diag([-1, 1, 1, 1]))) 176s assert_array_equal(out_img.dataobj, np.flipud(data)) 176s # Subsample voxels 176s out_img = resample_to_output(Nifti1Image(data, np.diag([4, 5, 6, 1]))) 176s > with pytest.warns(UserWarning): # Suppress scipy warning 176s E Failed: DID NOT WARN. No warnings of type (<class 'UserWarning'>,) were emitted. 176s E Emitted warnings: []. 176s 176s nibabel/tests/test_processing.py:278: Failed This bug will become RC serious later, after scipy 1.16 is uploaded to unstable. -- System Information: Debian Release: 13.0 APT prefers unstable-debug APT policy: (500, 'unstable-debug'), (500, 'unstable'), (1, 'experimental') Architecture: amd64 (x86_64) Foreign Architectures: i386 Kernel: Linux 6.12.38+deb13-amd64 (SMP w/8 CPU threads; PREEMPT) Kernel taint flags: TAINT_PROPRIETARY_MODULE, TAINT_WARN, TAINT_OOT_MODULE Locale: LANG=en_AU.UTF-8, LC_CTYPE=en_AU.UTF-8 (charmap=UTF-8), LANGUAGE=en_AU:en Shell: /bin/sh linked to /usr/bin/dash Init: systemd (via /run/systemd/system) LSM: AppArmor: enabled
