interfaces.c3

C3dAffineTool

Link to code

Wraps command c3d_affine_tool

Converts fsl-style Affine registration into ANTS compatible itk format

Example

>>> from nipype.interfaces.c3 import C3dAffineTool
>>> c3 = C3dAffineTool()
>>> c3.inputs.source_file = 'cmatrix.mat'
>>> c3.inputs.itk_transform = 'affine.txt'
>>> c3.inputs.fsl2ras = True
>>> c3.cmdline 
'c3d_affine_tool -src cmatrix.mat -fsl2ras -oitk affine.txt'

Inputs:

[Mandatory]

[Optional]
args: (a unicode string)
        Additional parameters to the command
        flag: %s
environ: (a dictionary with keys which are a newbytes or None or a
         newstr or None and with values which are a newbytes or None or a
         newstr or None, nipype default value: {})
        Environment variables
fsl2ras: (a boolean)
        flag: -fsl2ras, position: 4
ignore_exception: (a boolean, nipype default value: False)
        Print an error message instead of throwing an exception in case the
        interface fails to run
itk_transform: (a boolean or a file name)
        Export ITK transform.
        flag: -oitk %s, position: 5
reference_file: (an existing file name)
        flag: -ref %s, position: 1
source_file: (an existing file name)
        flag: -src %s, position: 2
terminal_output: (u'stream' or u'allatonce' or u'file' or u'none')
        Control terminal output: `stream` - displays to terminal immediately
        (default), `allatonce` - waits till command is finished to display
        output, `file` - writes output to file, `none` - output is ignored
transform_file: (an existing file name)
        flag: %s, position: 3

Outputs:

itk_transform: (an existing file name)