Hello, AFNI team!
I am trying to run 3dDeconvolve, but I am having trouble with the correct way to specify the basis function. If I use the script below, then I get the message "-'BLOCK' is unknown response function type". If I remove the quotation marks around 'BLOCK(1,6)', then I get the message "Badly placed (."
Please let me know what I am doing wrong and how to do it correctly!
Thank you.
PS There are 6 functional runs and 9 conditions specified by timing files.
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#!/bin/tcsh
foreach subject (313)
#navigate to the 'keep ' directory
cd ${subject}/${subject}.keep
#copy the timing files to this directory
cp ../*.txt ./
#deconvolve here
3dDeconvolve -input pb05.${subject}.r01.scale+tlrc pb05.${subject}.r02.scale+tlrc pb05.${subject}.r03.scale+tlrc pb05.${subject}.r04.scale+tlrc pb05.${subject}.r05.scale+tlrc pb05.${subject}.r06.scale+tlrc -noblock -censor motion_${subject}_censor.1D -ortvec mot_demean.r01.1D mot_demean_r01 -ortvec mot_demean.r02.1D mot_demean_r02 -ortvec mot_demean.r03.1D mot_demean_r03 -ortvec mot_demean.r04.1D mot_demean_r04 -ortvec mot_demean.r05.1D mot_demean_r05 -ortvec mot_demean.r06.1D mot_demean_r06 -polort 2 -num_stimts 9 -stim_times 1 XFC${subject}FarFracFrac.txt -'BLOCK(1,6)' -stim_label 1 farff -stim_times 2 XFC${subject}NearFracFrac.txt -'BLOCK(1,6)' -stim_label 2 nearff -stim_times 3 XFC${subject}MedFracFrac.txt -'BLOCK(1,6)' -stim_label 3 medff -stim_times 4 XFC${subject}FarFracLine.txt -'BLOCK(1,6)' -stim_label 4 farfl -stim_times 5 XFC${subject}NearFracLine.txt -'BLOCK(1,6)' -stim_label 5 nearfl -stim_times 6 XFC${subject}MedFracLine.txt 'BLOCK(1,6)' -stim_label 6 medfl -stim_times 7 XFC${subject}FarLineLine.txt -stim_label 7 farll -stim_times 8 XFC${subject}NearLineLine.txt -stim_label 8 nearll -stim_times 9 XFC${subject}MedLineLine.txt -stim_label 9 medll -gltsym 'SYM: +nearff +nearfl +nearll -farff -farfl -farll' -glt_label 1 all_near_far -gltsym 'SYM: +nearff -farff' -glt_label 2 FF_near_far -gltsym 'SYM: + +nearll -farll' -glt_label 3 LL_near_far -gltsym 'SYM: +nearfl -farfl' -glt_label 4 FL_near_far -fout -tout -x1D X.xmat.1D -xjpeg X.jpg -x1D_uncensored X.nocensor.xmat.1D -fitts fitts.${subject} -errts errts.${subject} -bucket stats.${subject}
cd ../..
end
