osboxes@osboxes:~/Documents/freesurfer/subjects/iDBS007/mri$ mri_watershed -wat+temp -useSRAS -surf ./surfout ./T1.mgz ./brainvol

Mode:          watershed algorithm + first template smoothing
Mode:          use surfaceRAS to save surface vertex positions
Mode:          Saving out BEM surfaces

*********************************************************
The input file is ./T1.mgz
The output file is ./brainvol

*************************WATERSHED**************************
Sorting...
      T1-weighted MRI image
      modification of the preflooding height to 15 percent
      Count how many 110 voxels are present :  139360

      Find the largest 110-component...
             heap usage = 200464 Kbytes.
             current max segment has 111799 voxels
             removing small segments (less than 1 percent of maxarea).
             heap usage = 131784 Kbytes.
             removing small segments (less than 1 percent of maxarea).done
      And identify it as the main brain basin...done
      Main component: 111799 voxels
      first estimation of the COG coord: x=130 y=126 z=113 r=77
      first estimation of the main basin volume: 1973574 voxels
      global maximum in x=112, y=110, z=78, Imax=255
      CSF=24, WM_intensity=110, WM_VARIANCE=5
      WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 
      preflooding height equal to 15 percent
done.
Analyze...

      main basin size= 1212297 voxels, voxel volume =1.000 
                     = 1212297 mmm3 = 1212.297 cm3
done.
PostAnalyze...
      ambiguous basin, merged: at least 6 ambiguous voxels; size: 213 voxels
      ambiguous basin, merged: at least 6 ambiguous voxels; size: 167 voxels
      ambiguous basin, merged: at least 17 ambiguous voxels; size: 4603 voxels
      ambiguous basin, merged: at least 12 ambiguous voxels; size: 1336 voxels
      ambiguous basin, merged: at least 6 ambiguous voxels; size: 203 voxels
      ambiguous basin, merged: at least 50 ambiguous voxels; size: 117655 voxels
      ***** 6 basin(s) merged in 4 iteration(s)
      ***** 124177 voxel(s) added to the main basin
      ambiguous basin, non merged: 8 ambiguous voxels; size: 2743 voxels
done.

****************TEMPLATE DEFORMATION****************

      second estimation of the COG coord: x=129,y=126, z=107, r=10065 iterations
      mri_strip_skull: done peeling brain

Brain Size = 1470715 voxels, voxel volume = 1.000 mm3
           = 1470715 mmm3 = 1470.715 cm3

      outer skin surface matching...
mri_watershed Error: 
 Problem in find normal