Extract and save niworkflows-boldref brain-extract outputs

[mgxd]

niworkflows/niworkflows/cli/boldref.py

Line 51 in 3120884

def main(args=None):

specifically the generated mask:

• <hash>/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz

and likely the report:

• <hash>/mask_reportlet/report.svg

[effigies]

To duplicate my comment on fMRIPrep, I think right now the outputs are going to be removed by default because of the nipype configuration flag remove_unnecessary_outputs. I haven't tested this, though.

In any event, a datasink is a good idea for having sensible output names.

[mgxd]

I had just tested this within a docker container and the two files listed above were present. Probably because we are connecting them to outputnodes somewhere..

[effigies]

Oh, okay. Then this is extremely low priority.