Dear,
Recently, I ran the newest version of the fMRIprep (22.0.0) on the data which was previously preprocessed with 20.2.6. With the older version, the output looked perfectly fine. However, with the newest version the “corrected” data after the distortion correction looks much worse than the original input. The shapes are stretched out (please find attached the example of my output below). The number of motion outliers is very little so it’s unlikely that these effects are due to the excessive movement of the subject.
The command I use is: datalad containers-run -m “run fmriprep on sub-002” -i “BIDS/sub-002/" -o "derivatives/fmriprep/sub-002” -n pipeline/fmriprep BIDS derivatives participant --participant-label 002 --fs-no-reconall --fd-spike-threshold 0.9 --dvars-spike-threshold 2 --verbose --output-spaces MNI152NLin2009cAsym:res-2 --ignore fieldmaps --use-syn-sdc
Moreover, it takes multiple hours to finish running the fMRIprep for one subject, whereas before it used to be 1h.
Could please please advise how can I solve the issue of the distortion correction not working well? Is it correct that the newest version takes so long?
Thank you for your help!
Best,
Aleksandra
