sour_dir =/users/desktop/MDD
sublist =${sour_dir}/sublist.txt
writting 'for circle' into recon-all.sh
for sub in ‘cat ${sublist} | sed -n 2, 10p’
do
echo ${sub}
mkdir -p ${sour_dir}/{sub}/mri
mri_convert ${sour_dir}/{sub}/anat/*.nii.gz
${sour_dir}/${sub}/mri/001.mgz
SUBJECTS_DIR = /users/desktop/MDD
recon-all -s ${sub} -all -qcache
done
run in terminal: recon-all.sh