Hello,
We are trying to process our custom diffusion dataset by adapting
DiffusionToStructural.sh script from HCP.
However when running below command its failing at the BBR step
>> ${GlobalScripts}/epi_reg_dof --dof=6 --epi=$DATADIR/b0.nii.gz
>> --t1=$PROCESSDIR/T1w/T1w.nii.gz
>> --t1brain=$PROCESSDIR/$i/T1w/T1w_brain.nii.gz --out=$DIFFUSIONDIR/bo_t1
with following error
ERROR::set_bbr_seg: could not find any boundary points!
> WARNING:: Found NaN in BBR cost (2)
And one of the outputs (fast_pve_2) from FAST command seems to be empty which
is causing to have empty fast_wmseg file.
If we supply a wmseg file (using freesurfer generated segmentation files), it
seem to be working fine.
Can you please suggest if you see any issues with this approach or if you have
other suggestions.
Thanks,
Prasanna
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