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Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

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korannvit

March 21, 2019 06:59AM

Registered: 6 years ago
Posts: 10

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

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Subject	Author	Posted
normalization of resting data to MNI152 template	korannvit	March 16, 2019 03:18AM
Re: normalization of resting data to MNI152 template	ptaylor	March 16, 2019 07:17AM
Re: normalization of resting data to MNI152 template	korannvit	March 19, 2019 02:37AM
Re: normalization of resting data to MNI152 template	ptaylor	March 19, 2019 09:55AM
Re: normalization of resting data to MNI152 template	korannvit	March 20, 2019 03:24AM
Re: normalization of resting data to MNI152 template	ptaylor	March 20, 2019 08:19AM
Re: normalization of resting data to MNI152 template	rick reynolds	March 20, 2019 11:22AM
Re: normalization of resting data to MNI152 template	korannvit	March 21, 2019 07:03AM
Re: normalization of resting data to MNI152 template	ptaylor	March 21, 2019 10:08AM
Re: normalization of resting data to MNI152 template	korannvit	March 23, 2019 01:55AM
Re: normalization of resting data to MNI152 template	ptaylor	March 23, 2019 07:08AM
Re: normalization of resting data to MNI152 template	korannvit	March 21, 2019 06:59AM