Hello!
A few months ago I had been using afni_proc.py successfully with the following options (see below). I tried running new subjects through this script this week and have noticed that -anat_follower_ROI is no longer a viable option. Do you have any suggestions for what to use instead to ensure consistency with the outputs of previous scans processed with this script?:
afni_proc.py -subj_id ${SUBJID[$n]}_${MRQID[$n]} \
-out_dir $afnidir/${SUBJID[$n]}/${MRQID[$n]}/output \
-script $afnidir/${SUBJID[$n]}/${MRQID[$n]}/proc_script.sh \
-blocks regress \
-copy_anat $fsdir/mri/aseg+orig \
-anat_follower_ROI aaseg anat $fsdir/SUMA/aparc.a2009s+aseg_rank.nii \
-anat_follower_ROI aeseg epi $fsdir/SUMA/aparc.a2009s+aseg_rank.nii \
-anat_follower_ROI FSvent epi $fsdir/SUMA/${SUBJID[$n]}_${MRQID[$n]}_vent.nii \
-anat_follower_ROI FSWe epi $fsdir/SUMA/${SUBJID[$n]}_${MRQID[$n]}_WM.nii \
-anat_follower_erode FSWe FSvent \
-dsets $afnidir/${SUBJID[$n]}/${MRQID[$n]}/rRest_psn+orig \
-regress_anaticor \
-regress_anaticor_label FSWe \
-regress_anaticor_radius ${WM} \
-regress_motion_file $afnidir/${SUBJID[$n]}/${MRQID[$n]}/Rest_mt.1D \
-regress_bandpass 0.01 0.1 \
-regress_ROI_PC FSvent 3
tcsh -xef $afnidir/${SUBJID[$n]}/${MRQID[$n]}/proc_script.sh 2>&1 | tee output.$afnidir/${SUBJID[$n]}/${MRQID[$n]}/proc_script.sh
Thanks,
Kate
Edited 2 time(s). Last edit at 01/06/2017 03:41PM by krasmussn.
