I've used 3dAutomask successfully in the past but just now when I tried to run the command
3dAutomask -prefix localizer_mask -SI 130 scaled_run1+orig I got no voxels clipped and the following output:
++ Loading dataset scaled_run1+orig
++ Forming automask
+ Fixed clip level = 0.000000
+ Used gradual clip level = 0.000000 .. 0.000000
+ Number voxels above clip level = 166400
+ Clustering voxels ...
+ Largest cluster has 166400 voxels
+ Clustering voxels ...
+ Largest cluster has 166400 voxels
+ Clustering voxels ...
+ Largest cluster has 166400 voxels
+ Clustering non-brain voxels ...
+ Clustering voxels ...
+ Largest cluster has 0 voxels
+ Mask now has 166400 voxels
++ 166400 voxels in the mask [out of 166400: 100.00%]
++ first 0 x-planes are zero [from R]
++ last 0 x-planes are zero [from L]
++ first 0 y-planes are zero [from A]
++ last 0 y-planes are zero [from P]
++ first 0 z-planes are zero [from I]
++ last 0 z-planes are zero [from S]
++ CPU time = 0.910000 sec
Can someone give some insight into what might be wrong?
Thanks!