sorry, all the previous emails did not make it into this one so I'm a bit lost. Can you repost with the previous correspondence?

On 8/14/19 1:51 PM, Mahshid Fouladivanda wrote:

External Email - Use Caution

Dear Doug, Thanks for your reply. I have used the same command in the recon-all.log file (seen bellow), but I have a doubt for the highlighted part in the command: "mri_aparc2aseg --s SBJ1 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z */usr/local/freesurfer/average/RB_all_2016-05-10.vc700.gca* mri/aseg.auto_noCCseg.label_intensities.txt"  which used a predefined file from freesurfer folder. Actually, I used the mri_aparc2aseg command with some changes, seen bellow: mri_aparc2aseg --s mysubj --annot aparc --o $SUBJECTS_DIR/mysubj/mri/parc.mgz so, I am wondered if it reads the ' */usr/local/freesurfer/average/RB_all_2016-05-10.vc700.gca*' automatically. I would appreciate it of you could help on. Regards, Mahshid

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