Passing fmriprep arguments to fmriprep-docker wrapper




Tis might seem like an obvious question but I haven’t found any information about it in the documentation. I’m using the fmriprep-docker wrapper to run fmriprep. I’d like to pass the --use-syn-sdc argument. How do I pass low-level input args for fmriprep into fmriprep-docker? Many thanks.


Just put them at the end of your command line.


Actually- when typing fmriprep-docker -h- one finds that all of the options are supported, though in the website documentation- only a small subset is shown to be supported- it seems as if the documentation website should be updated.


Thanks, your suggestion was noted here -