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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 20, 2019 03:24AM

Registered: 6 years ago
Posts: 10

Thanks, Paul for the suggestion.

Here is the afni_proc code for preprocessing.

afni_proc.py -subj_id 004 \
	-blocks despike tshift align tlrc volreg blur mask scale regress \
	-copy_anat 004_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 Rest.nii \
	-tcat_remove_first_trs 3 \
	-volreg_align_to MIN_OUTLIER \
	-volreg_align_e2a \
	-volreg_tlrc_warp  \
        -tlrc_base MNI152_2009_template_SSW.nii.gz \
	-tlrc_NL_warp \
      	-tlrc_NL_warped_dsets \
         	anatQQ.-base.nii \
         	anatQQ.-base.aff12.1D \
         	anatQQ.-base_WARP.nii \
	-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

And below is the error message copied from the terminal for the above proc file.

cat_matvec -ONELINE anatQQ.-base_WARP.nii anatQQ.-base.aff12.1D

Fatal Signal 11 (SIGSEGV) received
    mri_read_double_ascii
   THD_read_dvecmat
  cat_matvec
 Bottom of Debug Stack
** AFNI version = AFNI_18.0.05  Compile date = Jan 13 2018
** [[Precompiled binary linux_ubuntu_16_64: Jan 13 2018]]
** Program Death **
** If you report this crash to the AFNI message board,
** please copy the error messages EXACTLY, and give
** the command line you used to run the program, and
** any other information needed to repeat the problem.
** You may later be asked to upload data to help debug.
** Crash log is appended to file /home/naren123/.afni.crashlog

Plz, correct me if I'm following any wrong step.

Thanks
-Korann

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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