Hi FreeSurfer users,

I am using FreeSurfer v5.3 and have noticed that when -hemi is used as a flag in recon-all, the half I did not specify is not present in wm.mgz. The full command is recon-all -autorecon2 -autorecon3 -hemi (l or r)h -subjid subject_name -sd SUBJECTS_DIR. After running, white matter is missing in the half of wm.mgz not specified under the -hemi flag, but the surfaces and segmentation in aparc+aseg are unaffected. Is this a bug?

Ryan Michael Nillo UCSF Center for Radiology and Biomedical Imaging Staff Research Associate