Thank you very much for all the help, I will give that a try now.

There is only 1 other issue I am getting for a few subjects:

3dAllineate -base final_epi_vr_base_min_outlier+tlrc -allcostX -input anat_final.Sub_016_01.11b.SSwarper.rest+tlrc
tee out.allcostX.txt
++ 3dAllineate: AFNI version=AFNI_20.1.14 (Jun 10 2020) [64-bit]
++ Authored by: Zhark the Registrator
++ Source dataset: ./anat_final.Sub_016_01.11b.SSwarper.rest+tlrc.HEAD
++ Base dataset:   ./final_epi_vr_base_min_outlier+tlrc.HEAD
++ Loading datasets into memory
++ Local correlation: blok type = 'RHDD(12.915)'
*+ WARNING: center of mass shifts (-cmass) are turned off, but would be TERRIBLY large!
*+ WARNING:   - at least one is more than 50% of search range
 +        -cmass x y z shifts =    6.008   56.231   31.226
 +  shift search range is +/- =   60.669   71.904   69.657
 +                                  9.9%    78.2%    44.8%
*+ WARNING: No output dataset will be calculated

which then seems to propagate to creating some sort of mask of all zeroes.

3dpc -mask mask_inter_Svent+tlrc -pcsave 3 -prefix rm.ROIPC.Svent.r01 rm.det_pcin_r01+tlrc
++ 3dpc: AFNI version=AFNI_20.1.14 (Jun 10 2020) [64-bit]
** FATAL ERROR: mask is all zeros!

Or alternatively ends with:

3dAllineate -base final_epi_vr_base_min_outlier+tlrc -allcostX -input anat_final.Sub_028_01.11b.SSwarper.rest+tlrc
tee out.allcostX.txt
++ 3dAllineate: AFNI version=AFNI_20.1.14 (Jun 10 2020) [64-bit]
++ Authored by: Zhark the Registrator
++ Source dataset: ./anat_final.Sub_028_01.11b.SSwarper.rest+tlrc.HEAD
++ Base dataset:   ./final_epi_vr_base_min_outlier+tlrc.HEAD
++ Loading datasets into memory
** FATAL ERROR: 3dAllineate fails :: base image has 0 nonzero voxels (< 100)
** Program compile date = Jun 10 2020

I plan to add -cmass to this specific 3dAllineate command and hope that fixes it.

I am simply unsure since that would be editing the script created by afni_proc.py and wondered if maybe the error comes from elsewhere or a setting I had in my afni_proc.py command. Most of my other subjects do not show such an issue.



Edited 2 time(s). Last edit at 07/02/2020 05:37PM by kxd344.