Hi - not sure about that - possibly a bug in slicer - actually I had
seen slicer crash a couple of times myself last week, but then
couldn't reproduce it.
If you want to send the data to Matthew he can have a look,
Cheers, Steve.
On 10 Jun 2009, at 04:51, Jonathan Ipser wrote:
> Hello Steve,
>
> Thank you for responding so rapidly to my query. After looking at the
> structural images I was using, it turns out that they were not in
> the same
> orientation as the standard image (though the functional data was
> correctly
> orientated). After using fslswapdim to reorient the structural image
> so that
> the labeling in fslview matched that for the standard image (using the
> command "fslswapdim input RL PA IS output"), the functional images
> are no
> longer inverted with respect to the standard space following
> registration. I
> have uploaded the structural image before and after reorientation to
> http://projects.pry.uct.ac.za/uploads/fMRI, for your interest.
>
> Unfortunately, when I use the reorientated structural image, I now
> receive a
> segmentation error when the slicer utility attempts to create the
> functional
> to structural overlay generated in the report (see error message
> below). As
> far as I can tell I have eliminated all the obvious explanations for
> this
> error (the example_func2highres and highres images are there, and
> there
> seems to be enough memory).
>
> Do you perhaps know why I might be getting this error. As everything
> else
> seems to be fine, with all the other images beside the functional to
> structural image generated on the registration html page, is this
> perhaps
> something that I shouldn't worry about?
>
> Any advice would be much appreciated.
>
> Best,
> Jonathan
>
> -----------------Error message:
> sh: line 1: 7345 Segmentation fault /usr/local/fsl/bin/slicer
> example_func2highres highres -s 2 -x 0.35 sla.png -x 0.45 slb.png -x
> 0.55
> slc.png -x 0.65 sld.png -y 0.35 sle.png -y 0.45 slf.png -y 0.55
> slg.png -y
> 0.65 slh.png -z 0.35 sli.png -z 0.45 slj.png -z 0.55 slk.png -z 0.65
> sll.png
>
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Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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