Hello all member!

I ran 3dDeconvolve with the arguments listed in the script below and saved the bucket to a NIfTI file. When I view the verbose header information for the file containing the bucket output, I can confirm that the file contains all of the expected sub-bricks with beta weights for each regressor specified in 3dDeconvolve. However, when I view the bucket output in a program like FSLview, only one volume is present.

Bill

3dDeconvolve -input \
../epi_run1_fnirt_6run_melodic.ica/denoised_data.nii.gz \
../epi_run2_fnirt_6run_melodic.ica/denoised_data.nii.gz \
../epi_run3_fnirt_6run_melodic.ica/denoised_data.nii.gz \
../epi_run4_fnirt_6run_melodic.ica/denoised_data.nii.gz \
../epi_run5_fnirt_6run_melodic.ica/denoised_data.nii.gz \
../epi_run6_fnirt_6run_melodic.ica/denoised_data.nii.gz \
-jobs 4 \
-polort 2 -num_stimts 4 \
-local_times \
-stim_times_IM 1 /deep/heller/work/savorema/1DDirs/${i}_1Dfiles/AFNI_win_local_times.txt 'SPMG3' \
-stim_label 1 Win \
-local_times \
-stim_times 2 /deep/heller/work/savorema/1DDirs/${i}_1Dfiles/AFNI_loss_local_times.txt 'SPMG3' \
-stim_label 2 Loss \
-stim_file 3 /deep/heller/work/savorema/anatDirs/${i}_anat/WM_all.txt \
-stim_label 3 WM_mask \
-stim_file 4 /deep/heller/work/savorema/anatDirs/${i}_anat/CSF_all.txt \
-stim_label 4 CSF_mask \
-xsave -xjpeg /deep/heller/work/savorema/${i}/FinancialWin/win_glm/win_glm \
-errts /deep/heller/work/savorema/${i}/FinancialWin/win_glm/residuals_win_IM.nii \
-bout \
-bucket /deep/heller/work/savorema/${i}/FinancialWin/win_glm/win_glm.nii

Is there any way to write each sub-brick from this bucket dataset onto the time dimension of a 4D dataset? To clarify, this would mean that each sub-brick would be represented in a 3D volume of a 4D dataset. I have searched the internet for information but still have no reasonable answer.

I am hoping to index through sub-bricks of the bucket dataset to perform a beta series correlation analysis, and it will be easier to carry out this analysis in matlab if all sub-bricks are listed along the 4th dimension of a single dataset.

Thanks in advance!



Edited 1 time(s). Last edit at 09/06/2017 02:57AM by beckham2000.