Dear Stefan - Have you run dtifit on this directory - this is always a
good check to make sure that everything in the directory is ok, as it only
takes a couple of minutes..
Tim
On Tue, 23 Nov 2004, Stefan Klöppel wrote:
> Hi,
> I have been trying to compute DWI-data (60 directions, 6 B0 images 4
> repetitions, 264 files) motion corrected and normalized with spm. I left out
> the eddy current correction. I used avwmerge to generate the 4d volume and
> used the first B0-image as nodif-volume. There were no complaints by
> bedpost_datacheck. After 30 hours I viewed the outputs of bedpost and found
> very distorted images, hardly recognisable as a brain. Consequently, when
> using probtrack, I received only blank images for every single seed voxel.
>
> When leaving out the whole pre-processing with spm but using fsl eddy
> current correction (ecc) and volume 1 as reference volume I receive the
> message: Both reference and input images have an sform matrix set (what does
> it mean?) and ecc leaves me with a filesize below 1 MB (input data was
> 200MB). Using avwsplit to determine the bvecs (I assume that they are
> changed by ecc) produces nifti_read_buffer error. All extracted files except
> the first are empty.
> I am stuck. Is there a way out.
> Thanks
> Stefan
>
--
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Tim Behrens
Centre for Functional MRI of the Brain
The John Radcliffe Hospital
Headley Way Oxford OX3 9DU
Oxford University
Work 01865 222782
Mobile 07980 884537
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