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tools:fmriprep [2026/03/19 14:39] – created willtools:fmriprep [2026/03/19 14:44] (current) – [Considerations] will
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 Example usage: Example usage:
   * ''Hera/Projects/Habit/mr/fmriprep_habitstudy.bash''   * ''Hera/Projects/Habit/mr/fmriprep_habitstudy.bash''
 +
 +===== Considerations =====
 +
 +  * fmriprep can reuse freesurfer when run before (otherwise will run minimal version internally).
 +  * When in [[:tools:docker]] or using accross users, specify a shared templateflow directory to reduce redownloading templates (every run in case of docker).
 +  * log files are per subject. Rerunning overwrites. For iterative runs of on going longitudinal data collection, use a separate ''_ses-$SES'' for each session.