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Hi


On 15 Oct 2007, at 09:52, Patrick Hales wrote:

> Hi
>
> This is the first time I have tried using FSL, and I am trying to  
> get the DTIFit program to work. I have
> a series of diffusion weighted images, each of which are stored as  
> individual fid files (created using
> Varian's VnmrJ software). There are seven images in total, one with  
> b=0 and 6 with diffusion
> gradients applied in non co-linear directions.  I have converted  
> each of these into Nifti format, and
> stored them all in a directory. I used FSLview to create my binary  
> mask, and have created text files
> with my gradient directions (all normalized to unit length), and my  
> b-values (in units of s/mm2).  In
> the DTIFit program, I have selected 'specify input files manually',  
> and supplied it with the directory
> containing my nifti files, and the filenames of my gradients and b- 
> values text files.

Sorry it is not clear here whether you selected each file manually  
(separately), or just provided the name of the directory containing  
the data files, in which case the files have to have special names  
(data,bvecs,bvals,nodif_brain_mask) ?


Saad.