Hi,
Does the image diffg_L_Hipp_mask.nii.gz look blank when you look at it in FSLView?
If you have recently upgraded from a previous version and are using an old *all.bvars file then I would try running the concat_bvars command again, as sometimes that fixes problems.
All the best,
Mark
On 19 Feb 2013, at 15:27, R. Duke <[log in to unmask]> wrote:
> Mark,
>
> When I run randomise (following fsl_utils) I get the error "an exception has been thrown Data mask is blank"
>
> Any suggestions on what I might be doing wrong? When I load the nifti output following fsl_utils (see below) in fslview I see no mask.
>
> FSL_utils command
> first_utils --vertexAnalysis --usebvars -i L_Hipp_all.bvars -d test_hipp.mat -o shape_analysis/diffg_L_Hipp --useReconMNI --useRigidAlign -v > & shape_analysis/diffg_L_Hipp_output.txt
>
> Randomise command
> randomise -i diffg_L_Hipp.nii.gz -m diffg_L_Hipp_mask.nii.gz -o diffg_L_Hipp_rand -d test_hipp.mat -t test_hipp.con -f test_hipp.fts --fonly -D -F 3
>
> Cheers
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