Add mideface

[vferat]

generate_docker.sh

             --freesurfer version=7.4.1 \

defacing_algorithms.py

def mideface_cmd(in_file, out_file):
    """
    Setup mideface command.

    Parameters
    ----------
    image : str
        Path to image that should be defaced.
    outfile : str
        Name of the defaced file.
    """
    from subprocess import check_call

    cmd = [
        "deepdefacer",
        "--i",
        in_file,
        "--o",
        out_file,
    ]
    check_call(cmd)
    return out_file


def run_mideface(in_file, out_file):
    """
    Setup and run mridefacer workflow.

    Parameters
    ----------
    image : str
        Path to image that should be defaced.
    subject_label : str
        Label of subject to operate on (without 'sub-').
    bids_dir : str
        Path to BIDS root directory.
    """
    mideface = pe.Node(
        Function(
            input_names=["in_file", "out_file"],
            output_names=["out_file"],
            function=deepdefacer_cmd,
        ),
        name="mideface",
    )
    mideface.inputs.in_file = in_file
    mideface.inputs.out_file = out_file
    results = mideface.run()
    out_file = results.outputs.out_file
    return out_file