Bug 2265478

python-nibabel fails to build with Python 3.13.0a4.

FAILED nibabel/tests/test_deprecated.py::TestNibabelDeprecator::test_dep_func
FAILED nibabel/tests/test_deprecator.py::TestDeprecatorFunc::test_dep_func - ...
FAILED nibabel/tests/test_parrec.py::test_diffusion_parameters_strict_sort - ...
FAILED nisext/tests/test_sexts.py::test_package_check - AttributeError: modul...


1) AttributeError: module 'logging' has no attribute 'warn'
According to https://docs.python.org/3.13/whatsnew/3.13.html:

logging: Remove undocumented and untested Logger.warn() and LoggerAdapter.warn() methods and logging.warn() function.
Deprecated since Python 3.3, they were aliases to the logging.Logger.warning() method,
logging.LoggerAdapter.warning() method and logging.warning() function.
(Contributed by Victor Stinner in gh-105376.)

2)
>       assert (
            func.__doc__
            == f'A docstring\n   \n   foo\n   \n{indent(TESTSETUP, "   ", lambda x: True)}'
            f'   Some text\n{indent(TESTCLEANUP, "   ", lambda x: True)}'
        )
E       AssertionError: assert 'A docstring\...ne, None)\n\n' == 'A docstring\... None)\n   \n'
E           A docstring
E         -    
E         -    foo
E         -    
E         -    
E         -    
E         + ...
E         
E         ...Full output truncated (43 lines hidden), use '-vv' to show

nibabel/tests/test_deprecator.py:95: AssertionError

Indentation in docstrings is now stripped, the output needs to be adjusted.

3) 
>       assert_almost_equal(bvecs, DTI_PAR_BVECS[np.ix_(np.argsort(DTI_PAR_BVALS), [2, 0, 1])])

nibabel/tests/test_parrec.py:536: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
/usr/lib64/python3.13/contextlib.py:85: in inner
    return func(*args, **kwds)
/usr/lib64/python3.13/contextlib.py:85: in inner
    return func(*args, **kwds)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

args = (<function assert_array_almost_equal.<locals>.compare at 0x7fd7ce47e8e0>, array([[ 0.   ,  0.   ,  0.   ],
       [-0...., -0.707, -0.   ],
       [ 0.   , -0.707,  0.707],
       [ 0.707, -0.   ,  0.707],
       [ 0.   ,  0.   ,  0.   ]]))
kwds = {'err_msg': '', 'header': 'Arrays are not almost equal to 7 decimals', 'precision': 7, 'verbose': True}

    @wraps(func)
    def inner(*args, **kwds):
        with self._recreate_cm():
>           return func(*args, **kwds)
E           AssertionError: 
E           Arrays are not almost equal to 7 decimals
E           
E           Mismatched elements: 6 / 24 (25%)
E           Max absolute difference: 1.334
E           Max relative difference: 2.
E            x: array([[ 0.   ,  0.   ,  0.   ],
E                  [-0.333, -0.667, -0.667],
E                  [-0.667, -0.333,  0.667],...
E            y: array([[ 0.   ,  0.   ,  0.   ],
E                  [-0.333, -0.667, -0.667],
E                  [ 0.667, -0.667,  0.333],...

/usr/lib64/python3.13/contextlib.py:85: AssertionError


https://docs.python.org/3.13/whatsnew/3.13.html

For the build logs, see:
https://copr-be.cloud.fedoraproject.org/results/@python/python3.13/fedora-rawhide-x86_64/07046875-python-nibabel/

For all our attempts to build python-nibabel with Python 3.13, see:
https://copr.fedorainfracloud.org/coprs/g/python/python3.13/package/python-nibabel/

Testing and mass rebuild of packages is happening in copr.
You can follow these instructions to test locally in mock if your package builds with Python 3.13:
https://copr.fedorainfracloud.org/coprs/g/python/python3.13/

Let us know here if you have any questions.

Python 3.13 is planned to be included in Fedora 41.
To make that update smoother, we're building Fedora packages with all pre-releases of Python 3.13.
A build failure prevents us from testing all dependent packages (transitive [Build]Requires),
so if this package is required a lot, it's important for us to get it fixed soon.

We'd appreciate help from the people who know this package best,
but if you don't want to work on this now, let us know so we can try to work around it on our side.