Home · Quickstart · Documentation · Citation · NiPy

# 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]
    terminal_output: ('stream' or 'allatonce' or 'file' or 'none')
            Control terminal output: `stream` - displays to terminal
            immediately, `allatonce` - waits till command is finished to display
            output, `file` - writes output to file, `none` - output is ignored

    [Optional]
    args: (a string)
            Additional parameters to the command
            flag: %s
    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
    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
    transform_file: (an existing file name)
            flag: %s, position: 3

Outputs:

    itk_transform: (an existing file name)