[Neurodebian-users] Segmentation fault with ANTS tools

[Yaroslav Halchenko]

that is unfortunate -- it would take us a bit more time to figure it out
-- primary complication is

and that fresh ANTs development requires ITK4 which is still only in
Debian experimental and still has issues (e.g. failing unittests)
forbidding it even to build across architectures.


Hi Brian,

Am I dreaming up that when we met a few weeks ago you said it might be feasible
to make current ANTs code compatible with ITK 3.2x through carrying
necessary complimentary code which got into ITK 4.x?


Antti,

regarding:
> Unfortunately it doesn't work even with the Normalize argument there.
> Similar behaviour still.

just out of curioucity --  is it a segfault again or something like

Exception caught during reference file reading 

itk::ImageFileReaderException (0x16bfab0)
Location: "void itk::ImageFileReader<TOutputImage, ConvertPixelTraits>::GenerateOutputInformation() [with TOutputImage = itk::Image<float, 3u>, ConvertPixelTraits = itk::DefaultConvertPixelTraits<float>]" 
File: /usr/include/InsightToolkit/IO/itkImageFileReader.txx
Line: 146
Description:  Could not create IO object for file /usr/lib/ants/AverageImages
...
?

> Antti

> to, 2012-03-08 kello 13:44 -0500, Yaroslav Halchenko kirjoitti:
> > we both might have fell into RTFM trap ;)  or may be even more severe
> > issue (I am not sure even if ANTS is building on wheezy ATM... so situation
> > might vary).

> > So:
> > ,----------------------------------------------------------------------------------
> > | $> /usr/lib/ants/AverageImages

> > | Usage:

> > | /usr/lib/ants/AverageImages ImageDimension Outputfname.nii.gz Normalize <images>
> > `---

> > mention that Normalize argument in there... so try

> > AverageImages 3 out.nii.gz 0 *.nii.gz

> > and please report back if that works for you :)

> > > Hello!

> > > I am trying to make a normalixed template with ANTS tools.When I run
> > > AverageImages program I am getting segmentation fault. 

> > > AverageImages 3 out.nii.gz *.nii.gz
> > >  Averaging 14 images 
> > >  fn ap_antsT1.nii.gz
> > >  fn el_antsT1.nii.gz
> > >  fn hn_antsT1.nii.gz
> > >  fn hv_antsT1.nii.gz
> > >  fn jh_antsT1.nii.gz
> > >  fn jml_antsT1.nii.gz
> > >  fn jp_antsT1.nii.gz
> > >  fn jv_antsT1.nii.gz
> > >  fn mh_antsT1.nii.gz
> > >  fn mk_antsT1.nii.gz
> > >  fn pv_antsT1.nii.gz
> > >  fn rk_antsT1.nii.gz
> > >  fn sk_antsT1.nii.gz
> > >  fn sr_antsT1.nii.gz
> > >  largest image [0, 0, 0]
> > >  file AverageImages does not exist . 
> > > Segmentation fault

> > > Anyone experiencing similar problems? This on Debian Wheezy (AMD64).

> > > Greetings,

> > > Antti


> > > _______________________________________________
> > > Neurodebian-users mailing list
> > > Neurodebian-users at lists.alioth.debian.org
> > > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/neurodebian-users





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