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OK cool..thnx for your help Saad :) Shail On 18 April 2012 14:42, Saad Jbabdi <[log in to unmask]> wrote: > That option was in the GUI by mistake. We don't support it anymore. > You can of course modify the GUI yourself (or your IT guys) to call this > script instead. > > Saad > > > > On 18 Apr 2012, at 13:34, Shail Segobin wrote: > > Hi Saad, > > Thank you for your prompt reply. I am actually using the GUI from FSL > 4.1.6. where when I check the option of reorienting the bvecs it asks me to > specify a nifti file. > > Should I move this script into the bin directory? If yes, I will need to > ask the IT people to do it since I do not have permissions to that > directory. > > Also, will this script work through the GUI for correcting the bvecs? > > Thanks and kind regards, > Shail > > > > > > On 18 April 2012 13:57, Saad Jbabdi <[log in to unmask]> wrote: > >> It shouldn't ask for a nifti file. >> Which script are you using? Please use the one attached. >> >> Saad >> >> >> >> >> >> >> On 18 Apr 2012, at 12:30, Shail Segobin wrote: >> >> Dear experts, >> >> I am very new to DTI and trying the processing steps for the very first >> time. >> >> In the Eddy current correction step, I would like to know why the >> reorient bvecs wants a nifti image instead of transformation parameters and >> if anyone could please tell me where to get this file from? >> >> I have sifted through questions on the mailing list and did not really >> get a concrete answer to this question. >> >> Many thanks for your time and help >> >> Shail >> >> >> -- >> Saad Jbabdi >> University of Oxford, FMRIB Centre >> >> JR Hospital, Headington, OX3 9DU, UK >> (+44)1865-222466 (fax 717) >> www.fmrib.ox.ac.uk/~saad <http://www.fmrib.ox.ac.uk/%7Esaad> >> >> >> >> >> >> >> >> >> >> >> >> > > -- > Saad Jbabdi > University of Oxford, FMRIB Centre > > JR Hospital, Headington, OX3 9DU, UK > (+44)1865-222466 (fax 717) > www.fmrib.ox.ac.uk/~saad <http://www.fmrib.ox.ac.uk/%7Esaad> > > > > > > > > > > >