Hi,

I would like to preprocess my dti data with topup (from FSL) before running trac-all. Is this a sensible approach? When I tried running trac-all -prep with the output file from topup (*_hifi_nodif.nii.gz) I got an error message:

mv -f /usit/abel/<....>/topuop/146/dmri/bvecs /usit/abel/<...>/topuop/146/dmri/bvecs.norot

xfmrot /usit/abel/<...>/topuop/146/dmri/dwi.ecclog /usit/abel/<...>topuop/146/dmri/bvecs.norot /usit/abel/<...>/topuop/146/dmri/bvecs

R: Subscript out of range.

It seems that there's a problem with bvecs and bvals. Should I reorganise my bvec and bvals?

Thank you!

Knut J Bjuland