Report missing everything but 'About' and 'Error' #3542
Description
What happened?
Ran fMRIPrep across a large number of participants with no issues. For a subset of participants, they have the correct output files but the HTML report only contains two sections ‘About’ and ‘Errors’. There were no errors reported.
Tried running fMRIPrep again on these participants with the --reports-only flag but the reports still missing all sections other than 'About' and 'Errors'.
Examining the derivatives directory, each participant has a figures directory filled with the expected .svg and .html files. Appears to be an issue with aggregation that can't be resolved by running --reports-only.
What command did you use?
fmriprep-docker $bids_dir $output_dir participant \
--participant-label $participant_id \
--stop-on-first-crash \
--fs-license-file /Users/fmriuser/license.txt \
--nprocs 12 \
--mem 64000 \
--output-spaces MNI152NLin6Asym:res-02 \
-v \
-w /Users/Shared/work \
--image nipreps/fmriprep:25.1.4What version of fMRIPrep are you running?
25.1.4
How are you running fMRIPrep?
Docker
Is your data BIDS valid?
Yes
Are you reusing any previously computed results?
No
Please copy and paste any relevant log output.
Logs are unremarkable:
251001-18:18:04,194 nipype.workflow INFO:
[MultiProc] Running 0 tasks, and 0 jobs ready. Free memory (GB): 64.00/64.00, Free processors: 12/12, Free GPU slot:0/0.
251001-18:18:06,288 nipype.workflow IMPORTANT:
fMRIPrep finished successfully!
251001-18:18:06,296 nipype.workflow IMPORTANT:
Works derived from this fMRIPrep execution should include the boilerplate text found in <OUTPUT_PATH>/logs/CITATION.md.Additional information / screenshots
Screenshot of a working report:
Screenshot of missing content report:
