Summary of what happened:
I’m a beginner with fmriprep…
I’m running the pipeline for 8 subjects in parellel.
I previously ran into a lot of issues that were solved (due to lack of resources mostly).
Now it’s been 18 hours that all my subject are stuck after the step
[Node] Setting-up "_threshold80" in "/tmp/work/fmriprep_22_1_wf/single_subject_001_wf/func_preproc_ses_01_task_rest_inscapes_bkwd_run_01_wf/bold_t1_trans_wf/threshold/mapflow/_threshold80".
either executing the last threshold or having finished the last threshold i.e :
[Node] Finished "_threshold87", elapsed time 0.038143s.
[Node] Executing "_threshold80" <fmriprep.interfaces.maths.Clip>
(different threshold number for each subject)
Command used (and if a helper script was used, a link to the helper script or the command generated):
fmriprep-docker $bids_root_dir $bids_root_dir/derivatives \ participant \ --participant-label $participant \ --skip-bids-validation \ --md-only-boilerplate \ --fs-license-file /home/martin/fs-license.txt \ --output-spaces MNI152NLin2009cAsym:res-2 \ --nthreads $nthreads \ --use-aroma \ --stop-on-first-crash
Environment (Docker, Singularity, custom installation):
Data formatted according to a validatable standard? Please provide the output of the validator:
Relevant log outputs (up to 20 lines):
Screenshots / relevant information:
For each subject I have two longitudinal sessions each with anat and func data, I wonder if the problem can be caused by this and be solved by addind --longitudinal ?
Any insight would be much appreciated,