tags 917740 +unreproducible +moreinfo
severity 917740 normal
thanks
Rebuilt package in current sid pbuilder env - no failing test. So my
fear is that the issue is somehow specific to that environment where it
failed or something has changed since then. Lowering severity. I will
upload fresh upstream shortly - so we will see if reproduces then
On Sun, 03 Feb 2019, Yaroslav Halchenko wrote:
> CHANGES error is benign , will clarify upstream
> https://github.com/nipy/nipype/issues/2873
> the actual issue is
> > raise TypeError("expected str, bytes or os.PathLike object,
> > "
> > > "not " + path_type.__name__)
> > E TypeError: expected str, bytes or os.PathLike object, not
> > unicode
> or in full:
> > === FAILURES
> > ===
> > _ test_split_and_merge
> > _
> > tmpdir = local('/tmp/pytest-of-user42/pytest-0/test_split_and_merge0')
> > def test_split_and_merge(tmpdir):
> > import numpy as np
> > import nibabel as nb
> > import os.path as op
> > import os
> > from nipype.algorithms.misc import split_rois, merge_rois
> > in_mask = example_data('tpms_msk.nii.gz')
> > dwfile = tmpdir.join('dwi.nii.gz').strpath
> > mskdata = nb.load(in_mask, mmap=NUMPY_MMAP).get_data()
> > aff = nb.load(in_mask, mmap=NUMPY_MMAP).affine
> > dwshape = (mskdata.shape[0], mskdata.shape[1], mskdata.shape[2], 6)
> > dwdata = np.random.normal(size=dwshape)
> > tmpdir.chdir()
> > nb.Nifti1Image(dwdata.astype(np.float32), aff,
> > None).to_filename(dwfile)
> > > resdw, resmsk, resid = split_rois(dwfile, in_mask, roishape=(20,
> > > 20, 2))
> > /<>/nipype/algorithms/tests/test_splitmerge.py:26:
> > _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
> > _ _
> > /<>/nipype/algorithms/misc.py:1318: in split_rois
> > np.savez(iname, (nzels[0][first:last], ))
> > /usr/lib/python2.7/dist-packages/numpy/lib/npyio.py:619: in savez
> > _savez(file, args, kwds, False)
> > /usr/lib/python2.7/dist-packages/numpy/lib/npyio.py:700: in _savez
> > file = os_fspath(file)
> > _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
> > _ _
> > path =
> > '/tmp/pytest-of-user42/pytest-0/test_split_and_merge0/roi00_idx'
> > def os_fspath(path):
> > """Return the path representation of a path-like object.
> > If str or bytes is passed in, it is returned unchanged. Otherwise
> > the
> > os.PathLike interface is used to get the path representation. If the
> > path representation is not str or bytes, TypeError is raised. If the
> > provided path is not str, bytes, or os.PathLike, TypeError is
> > raised.
> > """
> > if isinstance(path, (str, bytes)):
> > return path
> > # Work from the object's type to match method resolution of other
> > magic
> > # methods.
> > path_type = type(path)
> > try:
> > path_repr = path_type.__fspath__(path)
> > except AttributeError:
> > if hasattr(path_type, '__fspath__'):
> > raise
> > elif PurePath is not None and issubclass(path_type, PurePath):
> > return _PurePath__fspath__(path)
> > else:
> > raise TypeError("expected str, bytes or os.PathLike object,
> > "
> > > "not " + path_type.__name__)
> > E TypeError: expected str, bytes or os.PathLike object, not
> > unicode
> > /usr/lib/python2.7/dist-packages/numpy/compat/py3k.py:237: TypeError
--
Yaroslav O. Halchenko
Center for Open Neuroscience http://centerforopenneuroscience.org
Dartmouth College, 419 Moore Hall, Hinman Box 6207, Hanover, NH 03755
Phone: +1 (603) 646-9834 Fax: +1 (603) 646-1419
WWW: http://www.linkedin.com/in/yarik
