AvScale output

[Marcel Falkiewicz]

Hello,
 I'm trying to use the rotation and transformation matrix, which is output by AvScale() as input for applyxfm. However, AvScale() returns a list, which applyxfm does not tolerate as in_matrix_file (which is not surprising at all). How to convert the output of AvScale to file, so I can use it as an input to applyxfm?

Cheers,
 Marcel

[Satrajit Ghosh]

hi marcel,

the easiest thing might be to add a function node with the following function

```

from nipype.interfaces.utility import Function

from nipype.pipeline.engine import Node

def matrix_to_file(matrix):

    import numpy as np

    import os

    filename = os.path.join(os.getcwd(), 'matrix.txt')

    np.savetxt(filename, matrix, fmt='%.10f', delimiter=' ')

    return filename

converter = Node(Function(input_names['matrix'], output_names['matrix_file'], 

                          function=matrix_to_file), 

                 name='avscale2txt')

```

you might need to change the savetxt function to match flirt's expected format.

cheers,

satra

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[Marcel Falkiewicz]

Thank you Satra! This solves the problem :-)

2013/5/23 Satrajit Ghosh <sa...@mit.edu>