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Hi Mahmoud, why / where mutual info as a cost function? Cheers, Andreas Von: FSL - FMRIB's Software Library <[log in to unmask]> on behalf of Mahmoud <[log in to unmask]> Antworten an: FSL - FMRIB's Software Library <[log in to unmask]> Datum: Freitag, 14. Oktober 2016 um 23:21 An: <[log in to unmask]> Betreff: Re: [FSL] DTI motion I'm not sure about your version of eddy but I've used the 5.0.9. Also, the function name is eddy_openmo not eddy. First make sure you have the latest patch for eddy. Then add --repol option and don't forget to use mutualinfo as cost function. Mahmoud On Fri, Oct 14, 2016 at 5:09 PM, Thais Minett <[log in to unmask]> wrote: > Not really, > > My command was: eddy --imain=xxx_DTI.nii --mask=xxx_nodif_brain_mask.nii > --index=index.txt --acqp=acqp.txt --bvecs=xxx_DTI.bvecs --bvals= xxx_DTI.bvals > --fwhm=0 --flm=quadratic --out=xxx_data > > Regards, > > Thais Minett