[Neurodebian-users] NiBabel 2.2.0 breaks fsleyes 0.10.1-2 on Testing

[Michael Hanke]

Hi,

it seems to me that the culprit is the 'fslpy' package that "monkey
patches" the read_segments() function from NiBabel. The signature of
this function changed in Nibabel 2.2.0. Hence, all software using this
bit of fslpy is broken, including the latest fsleyes 0.15.1.

I could not find a fix in the fslpy source repo. I am CC'ing the fslpy
author.

@Paul: could you please ping me when there is a fix. Thanks!

Once I have this fix, I will roll out updates for packages:

indexed_gzip
fslpy
fsleyes-props
fsleyes-widgets
fsleyes


Michael



On Fri, Oct 20, 2017 at 03:11:45PM +0200, Michael Hanke wrote:
> Thanks, we saw that too yesterday. It is on my list of things to fix, by
> updating fsleyes, presumably.
> 
> michael
> 
> 
> 
> On Oct 20, 2017 14:58, "marco tettamanti" <tettamanti.marco at hsr.it> wrote:
> 
> > Dear Neurodebianers,
> > a recent upgrade from python-nibabel 2.1.0 to 2.2.0 broke the
> > functionality of fsleyes 0.10.1-2 installed on my Debian testing distro:
> >
> > Linux bll4 4.12.0-2-amd64 #1 SMP Debian 4.12.13-1 (2017-09-19) x86_64
> > GNU/Linux
> >
> > Nifti images were not displayed and loading caused the error message:
> > "read_arguments takes exactly 3 arguments (4 given)"
> >
> > Reverting back to python-nibabel 2.1.0 solved the problem.
> >
> > Best wishes,
> > Marco
> >
> > --
> > Marco Tettamanti, Ph.D.
> > Nuclear Medicine Department & Division of Neuroscience
> > IRCCS San Raffaele Scientific Institute
> > Via Olgettina 58
> > I-20132 Milano, Italy
> > Phone ++39-02-26434888 <+39%2002%202643%204888>
> > Fax ++39-02-26434892 <+39%2002%202643%204892>
> > Email: tettamanti.marco at hsr.it
> > Skype: mtettamantihttp://scholar.google.it/citations?user=x4qQl4AAAAAJ
> >
> >
> >
> >
> > *Rispetta l’ambiente: non stampare questa mail se non è necessario.
> > Respect the environment: if it's not necessary, don't print this mail.*
> >
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> >

-- 
Michael Hanke
GPG: 4096R/C073D2287FFB9E9B
http://psychoinformatics.de