poor functional brain mask

[manzouri]

What happened?

I ran fmriprep 23.2.0 on my data where I have 2 functional (RS and task) , in some subjects I see a poor brain mask that misses some parts of the brain. I wonder how can I fix this or improve this, also how important is the functional mask if I don't use the compcors for regression, where else it affects the results?

What command did you use?

fmriprep-docker $bids_root_dir $out_dir/ \
    participant \
    --participant-label $subject \
    --user $(id -u) \
    --work-dir $wd_dir \
    --skip-bids-validation \
    --md-only-boilerplate \
    --output-spaces MNI152NLin2009cAsym \
    --no-tty \
    --omp-nthreads $nthreads \
    --stop-on-first-crash \
    --mem_mb $mem_mb \
    --fs-license-file /home/common/toolbox/license/license_freesurfer_oct22.txt \
    --notrack

What version of fMRIPrep are you running?

23.2.0

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.

No response

Additional information / screenshots

No response