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interfaces.mne.base

WatershedBEM

Code: file:///build/buildd/nipype-0.6.0/nipype/interfaces/mne/base.py#L44

Wraps command mne_watershed_bem

Uses mne_watershed_bem to get information from dicom directories

Examples

>>> from nipype.interfaces.mne import WatershedBEM
>>> bem = WatershedBEM()
>>> bem.inputs.subject_id = 'subj1'
>>> bem.inputs.subjects_dir = '.'
>>> bem.cmdline
'mne_watershed_bem --overwrite --subject subj1 --volume T1'
>>> bem.run()                               

Inputs:

[Mandatory]
subject_id: (a string)
        Subject ID (must have a complete Freesurfer directory)
subjects_dir: (an existing directory name, nipype default value: )
        Path to Freesurfer subjects directory

[Optional]
args: (a string)
        Additional parameters to the command
atlas_mode: (a boolean)
        Use atlas mode for registration (default: no rigid alignment)
environ: (a dictionary with keys which are a value of type 'str' and with values which
         are a value of type 'str', nipype default value: {})
        Environment variables
ignore_exception: (a boolean, nipype default value: False)
        Print an error message instead of throwing an exception in case the interface fails to
        run
overwrite: (a boolean, nipype default value: True)
        Overwrites the existing files
volume: ('T1' or 'aparc+aseg' or 'aseg' or 'brain' or 'orig' or 'brainmask' or 'ribbon',
         nipype default value: T1)
        The volume from the "mri" directory to use (defaults to T1)

Outputs:

brain_surface: (an existing file name)
        Brain surface (in Freesurfer format)
cor_files: (an existing file name)
        "COR" format files
fif_file: (an existing file name)
        "fif" format file for EEG processing in MNE
inner_skull_surface: (an existing file name)
        Inner skull surface (in Freesurfer format)
mesh_files: (an existing file name)
        Paths to the output meshes (brain, inner skull, outer skull, outer skin)
outer_skin_surface: (an existing file name)
        Outer skin surface (in Freesurfer format)
outer_skull_surface: (an existing file name)
        Outer skull surface (in Freesurfer format)