Hello,
I am trying to run fmriprep on a single participant that has one anatomical scan and 15 functional scans. I have been running fmriprep with mem_mb 256000. Every time I run it, when I check the log .out file, it doesn’t get past the line fMRIprep workflow graph with 24417 nodes built successfully. It doesn’t start actually running fMRIprep and instead times out after 72 hours, even though there is enough memory and should only take 6-7 hours to run.
I have 3 different participants. For one subject, running fMRIprep worked. For the second subject, I removed the one session that had 3 field maps (3 ap, 3 pa) rather that 2 like the others, and it worked when I ran it. For the third participant, I did the same with the 2 sessions that had 3 field map runs, but it is still getting stuck.
Why is fMRIprep getting stuck before actually starting? How do I make the third participant fMRIprep run successfully? Is there a way to run all the sessions for one participant rather than separate the ones with 3 field map runs rather than 2?
Thank!