Paul,

Hi. Okay, now I am shamelessly rebumping because the subject of the post would be identical to this one. Unless you say otherwise, I will assume that you prefer rebumping when the subject is very similar versus starting new threads. Or that you have no preference. The only reason I say that is I very much appreciate help from SSCC and want to make things as easy as possible for it.

I ran some tests with 3dNetCorr both with and without -weight_ts. I used identical code. The only change was -weight_ts. Without the weighting file, everything was fine. With the weighting file, the entire correlation matrix was 1.000 (for the diagonal) or 0.999 (elsewhere). Within my 77 functional MRI runs, when the censor file had no zeros by chance, the results were fine again. See below for the hideous details.

Sincerely,

Dante


Old:
3dNetCorr \
-mask /data/AMRI/picchioni/20211212_pilot_matricies_04.03_allruns/unix_files/20170223_0434_TT_N27_mask_wb.nii \
-push_thru_many_zeros \
-fish_z \
-ts_wb_Z \
-nifti \
-prefix output_20170223_0434_procbasic_ric_rvt_ppga \
-inset ../20170223_0434_procbasic_ric_rvt_ppga_tr80.nii \
-in_rois /data/AMRI/picchioni/20211212_pilot_matricies_04.03_allruns/unix_files/20170223_0434_TT_N27_EZ_ML.nii

New:
3dNetCorr \
-mask /data/AMRI/picchioni/20211212_pilot_matricies_04.03_allruns/unix_files/20170223_0434_TT_N27_mask_wb.nii \
-push_thru_many_zeros \
-fish_z \
-ts_wb_Z \
-nifti \
-prefix output_20170223_0434_procbasic_ric_rvt_ppga \
-inset ../20170223_0434_procbasic_ric_rvt_ppga_tr80.nii \
-weight_ts ../20170223_0434_censor_tr80.1D \
-in_rois /data/AMRI/picchioni/20211212_pilot_matricies_04.03_allruns/unix_files/20170223_0434_TT_N27_EZ_ML.nii