Hi:
I got the following error... How can I solve it ?...
recon-all.log ----------------------------------------------------------------- mri_watershed -T1 -brain_atlas /usr/local/freesurfer/average/RB_all_withskull_2008-03-26.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz
Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details)
********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz If this is incorrect, please exit with CTL-C
Weighting the input with atlas information before watershed
*************************WATERSHED************************** Sorting... first estimation of the COG coord: x=125 y=122 z=99 r=84 first estimation of the main basin volume: 2562881 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=103, y=120, z=70, Imax=255 CSF=17, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 10 percent done Analyze
main basin size=33359051 voxels, voxel volume =1.000 = 33359051 mmm3 = 33359.051 cm3 done PostAnalyze...Basin Prior 86 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done Weighting the input with prior template
****************TEMPLATE DEFORMATION****************
second estimation of the COG coord: x=127,y=125, z=105, r=9959 iterations GLOBAL CSF_MIN=0, CSF_intensity=9, CSF_MAX=52 , nb = 22212 RIGHT_CER CSF_MIN=0, CSF_intensity=5, CSF_MAX=22 , nb = 1368 LEFT_CER CSF_MIN=0, CSF_intensity=9, CSF_MAX=26 , nb = 1242 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=56 , nb = 9603 LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=49 , nb = 9792 OTHER CSF_MIN=0, CSF_intensity=33, CSF_MAX=47 , nb = 207 mri_watershed Error: GLOBAL region of the brain empty ! Linux image 2.6.28-15-generic #49-Ubuntu SMP Tue Aug 18 18:40:08 UTC 2009 i686 GNU/Linux
recon-all exited with ERRORS at Wed Oct 7 15:29:31 CLT 2009