dmriprep.interfaces.bids module

BIDS-related interfaces.

class dmriprep.interfaces.bids.BIDSSourceFile(from_file=None, resource_monitor=None, **inputs)View on GitHub

Bases: SimpleInterface

Mandatory Inputs:

bids_info (a dictionary with keys which are any value and with values which are any value) – BIDS information dictionary.

Optional Inputs:

  • anat_type (‘t1w’ or ‘t2w’) – Anatomical reference type. (Nipype default value: t1w)

  • precomputed (a dictionary with keys which are any value and with values which are any value) – Precomputed BIDS information. (Nipype default value: {})

  • sessionwise (a boolean) – Keep session information. (Nipype default value: False)

Outputs:

source_file (a pathlike object or string representing a file) – Source file.

class dmriprep.interfaces.bids.BIDSURI(numinputs=0, **inputs)View on GitHub

Bases: SimpleInterface

Convert input filenames to BIDS URIs, based on links in the dataset.

This interface can combine multiple lists of inputs.

Mandatory Inputs:

  • dataset_links (a dictionary with keys which are any value and with values which are any value) – Dataset links.

  • out_dir (a string) – Output directory.

Outputs:

out (a list of items which are a string) – BIDS URI(s) for file.

input_specView on GitHub

alias of _BIDSURIInputSpec

class dmriprep.interfaces.bids.CreateFreeSurferID(from_file=None, resource_monitor=None, **inputs)View on GitHub

Bases: SimpleInterface

Mandatory Inputs:

subject_id (a string) – BIDS Subject ID.

Optional Inputs:

session_id (a string) – BIDS session ID.

Outputs:

subject_id (a string) – FreeSurfer subject ID.