Using MapNode results in extra subdirectories in the output of my pipeline.
For example:
fs_iso1mm = MapNode(
fs.Resample(voxel_size=(1.0, 1.0, 1.0)),
name='fs_iso1mm',
iterfield=['in_file'],
)
Results in the sub-directories, such as “_fs_iso1mm10” in the final output directory.
How do I avoid the creation of these sub-directories, while still being able to use the subject_id, session_id, etc in the output directory? I have parameterization turned on for my DataSink, because I need to be able to define subdirectories based on subject, session, and datatype (following BIDS) - and I haven’t found a better way to do this.
Things that I thought about were:
- Using regex_substitution - should work but perhaps not ideal?
- Using JoinNode?
- Extending DataSink to allow templates to specify the output.