[Freesurfer] mri_sclimbic_seg patch issue?

External Email - Use Caution Dear FreeSurfer Developers, We are interested in implementing " mri_sclimbic_seg " from FreeSurfer 7.3.2 and are having trouble getting it to finish processing. When I tried to runmri_sclimbic_seg. I keep getting a python error and the process never f

[Freesurfer] PETSurfer tutorial images?

External Email - Use Caution Dear FreeSurfer/PETSurfer experts, I am beginning to explore the functionality of PETSurfer, and in the Wiki there is reference to a set of 18 folders ("  called s01, s02, etc"), and I am wondering if that dataset is publicly  available (and if so, whe

Re: [Freesurfer] SAMSEG output orientation not the same as input images

External Email - Use Caution Dear Doug, The "template_coreg.mgz" image is also upside-down and rotated 90 degrees (X).  Can you suggest how I might troubleshoot the initial registration?  I can send a logfile if it helps (not sure if I attach the textfile it will pass through y

[Freesurfer] SAMSEG output orientation not the same as input images

External Email - Use Caution We have recently installed FS-7.1 and have tested a few “ADNI” images with SAMSEG.  The process runs to completion, but the output (seg.mgz) appears upside-down and rotated about 90 about the X-axis.  We are passing seg.mgz through BrainStorm to crea