This may be painfully obvious, but how does fmriprep store all the processing outputs into work_dir in the organized way where each workflow/node inherits the working directory of the parent? I was playing around with nipype here and the top level workflow directory
nuisance_regression_wf is in the right spot, but the other sub-workflows pop up in the directory I run the script from and all the nodes execute in
/tmp. More pointedly, how do I get workflows/nodes to inherit
base_dir have them make a directory and store results/other directories within it.
Thank you all for your help/wisdom,