[Neuroimaging] Nibabel release imminent

[Yaroslav Halchenko]

On Fri, 29 Jul 2016, Yaroslav Halchenko wrote:

> > I just put in a PR https://github.com/nipy/nibabel/pull/464 to deal
> > with some unchecked assumptions in the new spatial processing code -
> > I'd be very happy of a review.

> > Are there any other changes that people want to push for, for this next release?

> FWIW, builds/tests seems pass ok across majority of Debian/Ubuntus (on
> 12.04 need to do more dancing around mpl to test).

> I would really appreciate feedback on my "selfish" idea:
> https://github.com/nipy/nibabel/pull/466

some detected changes in behaviour of nibabel are detected within pymvpa
tests... yet to look in details

======================================================================
ERROR: test_surf_gifti (mvpa2.tests.test_surfing.SurfTests)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/build/pymvpa2-2.3.1/debian/tmp/usr/lib/python2.7/dist-packages/mvpa2/testing/tools.py", line 165, in newfunc
    func(*(arg + (filename,)), **kw)
  File "/build/pymvpa2-2.3.1/debian/tmp/usr/lib/python2.7/dist-packages/mvpa2/tests/test_surfing.py", line 1081, in test_surf_gifti
    surf.write(fn, s)
  File "/build/pymvpa2-2.3.1/debian/tmp/usr/lib/python2.7/dist-packages/mvpa2/support/nibabel/surf.py", line 2229, in write
    surf_gifti.write(fn, s, overwrite=overwrite)
  File "/build/pymvpa2-2.3.1/debian/tmp/usr/lib/python2.7/dist-packages/mvpa2/support/nibabel/surf_gifti.py", line 254, in write
    xml = to_xml(s, fn)
  File "/build/pymvpa2-2.3.1/debian/tmp/usr/lib/python2.7/dist-packages/mvpa2/support/nibabel/surf_gifti.py", line 203, in to_xml
    img = to_gifti_image(img)
  File "/build/pymvpa2-2.3.1/debian/tmp/usr/lib/python2.7/dist-packages/mvpa2/support/nibabel/surf_gifti.py", line 162, in to_gifti_image
    arr.num_dim = len(arr.dims)
AttributeError: can't set attribute

======================================================================
FAIL: mvpa2.tests.test_niftidataset.test_assumptions_on_nibabel_behavior
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python2.7/dist-packages/nose/case.py", line 197, in runTest
    self.test(*self.arg)
  File "/build/pymvpa2-2.3.1/debian/tmp/usr/lib/python2.7/dist-packages/mvpa2/testing/tools.py", line 165, in newfunc
    func(*(arg + (filename,)), **kw)
  File "/build/pymvpa2-2.3.1/debian/tmp/usr/lib/python2.7/dist-packages/mvpa2/tests/test_niftidataset.py", line 425, in test_assumptions_on_nibabel_behavior
    assert_equal(slope, 1.0)
AssertionError: None != 1.0


-- 
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