fugue not listing outputs

Author: bpinsard

nipype/interfaces/fsl/preprocess.py

@@ -1388,6 +1388,26 @@ def _parse_inputs(self, skip=None):
 
         return super(FUGUE, self)._parse_inputs(skip=skip)
 
+    def _list_outputs(self):
+        outputs = self._outputs().get()
+        if self.inputs.forward_warping:
+            out_field = 'warped_file'
+        else:
+            out_field = 'unwarped_file'
+        out_file = getattr(self.inputs, out_field)
+        if not isdefined(out_file):
+            if isdefined(self.inputs.in_file):
+                out_file = self._gen_fname(self.inputs.in_file,
+                                           suffix='_'+out_field[:-5])
+        if isdefined(out_file):
+            outputs[out_field] = os.path.abspath(out_file)
+        if isdefined(self.inputs.fmap_out_file):
+            outputs['fmap_out_file'] = os.path.abspath(
+                self.inputs.fmap_out_file)
+        if isdefined(self.inputs.shift_out_file):
+            outputs['shift_out_file'] = os.path.abspath(
+                self.inputs.shift_out_file)
+        return outputs
 
 class PRELUDEInputSpec(FSLCommandInputSpec):
     complex_phase_file = File(exists=True, argstr='--complex=%s',