def _gen_outfilename(self):
from nipype.utils.filemanip import split_filename as split_f
_, in_brain, _ = split_f(self.inputs.inb_file)
_, ref, _ = split_f(self.inputs.refb_file)
if isdefined(self.inputs.xp):
outname = self.inputs.xp
else:
outname = in_brain + "_FLIRT-to_" + ref
return outname
def _list_outputs(self):
outputs = self.output_spec().get()
if isdefined(self.inputs.out_file):
if isinstance(self.inputs.out_file, list):
print([os.path.abspath(out) for out in self.inputs.out_file])
outputs['out_file'] = [
os.path.abspath(out) for out in self.inputs.out_file]
else:
outputs['out_file'] = os.path.abspath(self.inputs.out_file)
return outputs
def _list_outputs(self):
import os
from nipype.utils.filemanip import split_filename as split_f
outputs = self._outputs().get()
path, fname, ext = split_f(self.inputs.inw_file)
outputs["brain_file"] = os.path.abspath(fname + self.inputs.bs +
".nii.gz")
outputs["brain_mask_file"] = os.path.abspath(fname + self.inputs.bs +
"_mask.nii.gz")
if isdefined(self.inputs.xp):
outfile = self.inputs.xp
else:
outfile = self._gen_outfilename()
outputs["warp_file"] = os.path.abspath(outfile + ".nii.gz")
outputs["transfo_file"] = os.path.abspath(outfile + ".xfm")
outputs["inv_transfo_file"] = os.path.abspath(outfile + "_inverse.xfm")
return outputs
def _list_outputs(self):
outputs = self.output_spec().get()
if isdefined(self.new_value):
outputs['out_file'] = self.new_value
print(outputs['out_file'])
return outputs