Hi,

I want to run glts with 3dDeconvolve on subjects that have variable amounts of useable data, including subjects who have no data for some conditions. In the example below, for example, if a subject has no data for CalmGo how would that affect the glts that include that regressor as specified below? Would a 0 be included for each GLT, or would they be ignored and the other GLTs reweighted appropriately? In a related question: for contrasts like number 4 do I need to specify -3*IncorrectNogo, or will -IncorrectNogo balance be weighted appropriately as is to balance the contrast? As an alternative, is it possible to run GLTs on other GLTs, such that for contrast 4 I could simply put: +Go -IncorrectGo ?

The command in full is the following:

3dDeconvolve \
-input ${included_runs} \
-censor motion_censor.1D \
-cbucket ${SUBJECT}_EGNG_${scanner}_${session}_r${run}_SPMG3_cbucket \
-bucket ${SUBJECT}_EGNG_${scanner}_${session}_r${run}_SPMG3_bucket \
-rout -tout -fout -xsave -xjpeg ${SUBJECT}_EGNG_${scanner}_${session}_r${run}_SPMG3 \
-polort A \
-jobs 2 \
-local_times \
-GOFORIT 11 \
-num_stimts 10 \
-stim_times 1 Calm_Go.1D 'SPMG3' -stim_label 1 CalmGo \
-stim_times 2 Fear_Go.1D 'SPMG3' -stim_label 2 FearGo \
-stim_times 3 Happy_Go.1D 'SPMG3' -stim_label 3 HappyGo \
-stim_times 4 Calm_Nogo.1D 'SPMG3' -stim_label 4 CalmNogo \
-stim_times 5 Fear_Nogo.1D 'SPMG3' -stim_label 5 FearNogo \
-stim_times 6 Happy_Nogo.1D 'SPMG3' -stim_label 6 HappyNogo \
-stim_times 7 Incorrect_Nogo.1D 'SPMG3' -stim_label 7 IncorrectNogo \
-stim_times 8 Incorrect_Go.1D 'SPMG3' -stim_label 8 IncorrectGo \
-stim_file 9 motion_demean.1D'[0]' -stim_base 9 -stim_label 9 roll \
-stim_file 10 motion_demean.1D'[1]' -stim_base 10 -stim_label 10 pitch \
-stim_file 11 motion_demean.1D'[2]' -stim_base 11 -stim_label 11 yaw \
-stim_file 12 motion_demean.1D'[3]' -stim_base 12 -stim_label 12 dS \
-stim_file 13 motion_demean.1D'[4]' -stim_base 13 -stim_label 13 dL \
-stim_file 14 motion_demean.1D'[5]' -stim_base 14 -stim_label 14 dP \
-gltsym 'SYM: +CalmGo[0] +FearGo[0] +HappyGo[0]' -glt_label 1 Go \
-gltsym 'SYM: +CalmNogo[0] +FearNogo[0] +HappyNogo[0]' -glt_label 2 Nogo \
-gltsym 'SYM: +CalmNogo[0] +FearNogo[0] +HappyNogo[0] -CalmGo[0] -FearGo[0] -HappyGo[0]' -glt_label 3 Nogo-Go \
-gltsym 'SYM: +CalmNogo[0] +FearNogo[0] +HappyNogo[0] -IncorrectNogo[0]' -glt_label 4 Nogo-IncorrectNogo \
-gltsym 'SYM: +CalmGo[0] +FearGo[0] +HappyGo[0] -IncorrectGo[0]' -glt_label 5 Go-IncorrectGo \
-gltsym 'SYM: +CalmGo[0] +FearGo[0] +HappyGo[0] -IncorrectNogo[0]' -glt_label 6 Go-IncorrectNogo \
-gltsym 'SYM: +CalmNogo[0] +FearNogo[0] +HappyNogo[0] -IncorrectGo[0]' -glt_label 7 Nogo-IncorrectGo \
-errts ${SUBJECT}_EGNG_${scanner}_${session}_r${run}_SPMG3_errts_bucket \
-progress 1000

Thank you!