[Freesurfer] mris_anatomical_stats error

Dear experts, i try to run the command mris_anatomical_stats to get GrayVol, ThickAvg, etc from the left cortex as following: mris_anatomical_stats -l lh.cortex.label -f nmr033_2/stats/lh.cortex.stats nmr033_2 lh so the output is like following and did not generate any stats file(lh.cortex.stats

[Freesurfer] Orientation of 001.mgz versus raw dicom data

I have run the following command to create a 001.mgz file from raw *.dcm data: recon-all -s -i The output 001.mgz file is not in the same native space as the original *.dcm data. Could anyone tell me what space the 001.mgz file is in? Does the above command change the orientation (i.e does it r

[Freesurfer] window refresh problem with freesurfer v4.4.0

Whenever i try to open two windows(ie.' tkmedit bert orig.mgz 'and' tksurfer bert rh pial') the original one will not respond or refresh unless i close the second one,even i turn on the redraw button in the tksurfer. Also,i put the two windows side by side and did not overlay them. i've tried a few

[Freesurfer] window refresh problem with freesurfer v4.4.0

Hi,everyone I just installed the latest version of freesurfer. During the testing phase of the install, when 2 freesurfer windows are open (i.e. “tkmedit bert orig.mgz” and “tksurfer bert rh pial”) the first does not refresh. In fact the active 2nd window must be closed and the first must be refre