Summary of what happened:
Hello,
I have used fmriprep for preprcessing neuro imaging data.
But, I found that some data were preprocessed with AROMA, but without smoothing.
When I re-ran the fmriprep for that data, it was still preprocessed without smoothing.
I’m preprocessing fMRI images based on different tasks, but regardless of the task, smoothing is not being applied.
In my BIDS, there are T1w structural image, PA EPI image for fieldmap correction, and task based epi bold images.
Have you experienced this type of error before?
Command used (and if a helper script was used, a link to the helper script or the command generated):
fmriprep-docker /media/user/md1/Nifti /media/user/md1/Nifti/output participant --participant_label ${sub} --fs-license-file /home/user/license.txt --use-aroma
Version:
22.1.1
Environment (Docker, Singularity, custom installation):
Docker
Data formatted according to a validatable standard? Please provide the output of the validator:
I don’t know what this means. Is it means BIDS format? If it means that, yes, my data format was validated by BIDS validator.
Relevant log outputs (up to 20 lines):
HTML report suggests no error.
Automatic removal of motion artifacts using independent component analysis (ICA-AROMA, Pruim et al. 2015) was performed on the *preprocessed BOLD on MNI space* time-series after removal of non-steady state volumes and spatial smoothing with an isotropic, Gaussian kernel of 6mm FWHM (full-width half-maximum). Corresponding “non-aggresively” denoised runs were produced after such smoothing. Additionally, the “aggressive” noise-regressors were collected and placed in the corresponding confounds file.