from nipype.interfaces.matlab import MatlabCommand
from nipype.interfaces.base import (
    TraitedSpec,
    BaseInterface,
    BaseInterfaceInputSpec,
    File,
)
import os
from string import Template


class ConmapTxt2MatInputSpec(BaseInterfaceInputSpec):
    in_file = File(exists=True, mandatory=True)
    out_file = File('cmatrix.mat', usedefault=True)


class ConmapTxt2MatOutputSpec(TraitedSpec):
    out_file = File(exists=True)


class ConmapTxt2Mat(BaseInterface):
    input_spec = ConmapTxt2MatInputSpec
    output_spec = ConmapTxt2MatOutputSpec

    def _run_interface(self, runtime):
        d = dict(in_file=self.inputs.in_file, out_file=self.inputs.out_file)
        # This is your MATLAB code template
        script = Template(
            """in_file = '$in_file';
                             out_file = '$out_file';
                             ConmapTxt2Mat(in_file, out_file);
                             exit;
                          """
        ).substitute(d)

        # mfile = True  will create an .m file with your script and executed.
        # Alternatively
        # mfile can be set to False which will cause the matlab code to be
        # passed
        # as a commandline argument to the matlab executable
        # (without creating any files).
        # This, however, is less reliable and harder to debug
        # (code will be reduced to
        # a single line and stripped of any comments).
        mlab = MatlabCommand(script=script, mfile=True)
        result = mlab.run()
        return result.runtime

    def _list_outputs(self):
        outputs = self._outputs().get()
        outputs['out_file'] = os.path.abspath(self.inputs.out_file)
        return outputs