afni.nimh.nih.gov

Thanks, Paul for the continuous assistance.

@SSwarper code for your reference

@SSwarper CSRI-004-1-Structural.nii -base   MNI152_2009_template_SSW.nii.gz -subid  CSRI004

I followed your steps and the issue remains the same. Here is the modified code

afni_proc.py -subj_id CSRI004 \
	-blocks despike tshift align tlrc volreg blur mask scale regress \
	-copy_anat anatSS.-base.nii \
	-anat_has_skull no \
	-anat_follower anat_w_skull anat CSRI004_SurfVol.nii \
	-anat_follower_ROI aaseg anat aparc.a2009s+aseg.nii \
	-anat_follower_ROI aeseg epi aparc.a2009s+aseg.nii \
	-anat_follower_ROI FSvent epi 001_vent.nii \
	-anat_follower_ROI FSWe epi 002_wm.nii \
	-anat_follower_erode FSvent FSWe \
	-dsets CSRI-004-2-Rest.nii \
	-tcat_remove_first_trs 3 \
	-volreg_tlrc_warp -tlrc_base /home/naren123/abin/MNI152_2009_template_SSW.nii.gz \
	-align_opts_aea -giant_move -cost lpc+ZZ -check_flip \
	-tlrc_NL_warp \
      	-tlrc_NL_warped_dsets \
         	anatQQ.-base.nii \
         	anatQQ.-base.aff12.1D \
         	anatQQ.-base_WARP.nii \
	-volreg_align_to MIN_OUTLIER \
	-volreg_align_e2a \
	-regress_ROI_PC FSvent 3 \
	-regress_anaticor_fast \
	-regress_anaticor_label FSWe \
	-regress_bandpass 0.01 0.1 \
	-regress_apply_mot_types demean deriv \
	-regress_RSFC \
	-regress_est_blur_epits \
	-regress_est_blur_errts \
	-regress_run_clustsim no

Waiting for your comments.

Thanks
-Vittal