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nipype.interfaces.camino2trackvis.convert

Camino2Trackvis

Wraps command camino_to_trackvis

Wraps camino_to_trackvis from Camino-Trackvis

Convert files from camino .Bfloat format to trackvis .trk format.

Example

>>> import nipype.interfaces.camino2trackvis as cam2trk
>>> c2t = cam2trk.Camino2Trackvis()
>>> c2t.inputs.in_file = 'data.Bfloat'
>>> c2t.inputs.out_file = 'streamlines.trk'
>>> c2t.inputs.min_length = 30
>>> c2t.inputs.data_dims = [128, 104, 64]
>>> c2t.inputs.voxel_dims = [2.0, 2.0, 2.0]
>>> c2t.inputs.voxel_order = 'LAS'
>>> c2t.run()                  

Inputs:

[Mandatory]
data_dims : (a list of from 3 to 3 items which are an integer)
        Three comma-separated integers giving the number of voxels along each dimension of the source scans.
in_file : (an existing file name)
        The input .Bfloat (camino) file.
voxel_dims : (a list of from 3 to 3 items which are a float)
        Three comma-separated numbers giving the size of each voxel in mm.
voxel_order : (a file name)
        Set the order in which various directions were stored.        Specify with three letters consisting of one each          from the pairs LR, AP, and SI. These stand for Left-Right,         Anterior-Posterior, and Superior-Inferior.          Whichever is specified in each position will          be the direction of increasing order.          Read coordinate system from a NIfTI file.

[Optional]
args : (a string)
        Additional parameters to the command
environ : (a dictionary with keys which are a value of type 'str' and with values which are a value of type 'str')
        Environment variables
ignore_exception : (a boolean)
        Print an error message instead of throwing an exception in case the interface fails to run
min_length : (a float)
        The minimum length of tracts to output
nifti_file : (an existing file name)
        Read coordinate system from a NIfTI file.
out_file : (a file name)
        The filename to which to write the .trk (trackvis) file.

Outputs:

trackvis : (an existing file name)
        The filename to which to write the .trk (trackvis) file.

Trackvis2Camino

Wraps command trackvis_to_camino

Inputs:

[Mandatory]
in_file : (an existing file name)
        The input .trk (trackvis) file.

[Optional]
append_file : (an existing file name)
        A file to which the append the .Bfloat data.
args : (a string)
        Additional parameters to the command
environ : (a dictionary with keys which are a value of type 'str' and with values which are a value of type 'str')
        Environment variables
ignore_exception : (a boolean)
        Print an error message instead of throwing an exception in case the interface fails to run
out_file : (a file name)
        The filename to which to write the .Bfloat (camino).

Outputs:

camino : (an existing file name)
        The filename to which to write the .Bfloat (camino).