[jtanedo]

Thank you divarada.

I actually do specify the dwi-mask. In fact, here is my call

bdp.sh t1.bfc.nii.gz –nii dwi.nii.gz -g encoding.bvec -b encoding.bval –t1-mask t1_mask.bfc.nii.gz –dwi-mask dwi_mask.nii.gz