Hi - I'm afraid there isn't enough information in your description to
work out what your problem is, sorry. I would check that all betted
images are ok, and all initially flirted images are ok first.
Steve.
On 12 Dec 2008, at 15:53, Ben Yerys wrote:
> Hi--
>
> I have run fslvbm_2_template step (with -n option) on this dataset
> of 21
> controls and 21 cases on FSL 4.0.1 and FSL 4.0.2 and my
> template_4D_GM.nii.gz file shows several scans rotated improperly
> after this
> step (all scans are in the same orientation prior to step 2). This
> template
> step has been conducted on two separate systems and we get the same
> flawed
> template on both systems. The files were originally in *.brik
> format (for
> AFNI) and were converted to nifti with an AFNI tool. I don't think
> the
> header information was corrupted in a specific scan, because the
> scans that
> rotate vary in each iteration of fslvbm_2_template that I run. I've
> attached the output from fslerrorreport, but there is nothing
> obvious to me
> as to why some scans would be rotated. I'm sorry if this is
> insufficient
> information, but I'm happy to upload or email the template file
> itself.
>
> Thanks for your input!
>
> Ben
>
> <fsl_kjRAeT.gz>
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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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