Added support for custom output names

Author: chrisgorgo

doc/devel/cmd_interface_devel.rst

@@ -193,6 +193,10 @@ hash_files
 
 name_template (optional)
      overrides the default ``_generated`` suffix
+     
+output_name (optional)
+     name of the output (if this is not set same name as the input will be 
+     assumed)
 
 keep_extension (optional - not used)
      if you want the extension from the input to be kept

nipype/interfaces/base.py

@@ -1482,11 +1482,14 @@ def _overload_extension(self, value):
 
     def _list_outputs(self):
         metadata = dict(name_source=lambda t: t is not None)
-        out_names = self.inputs.traits(**metadata).keys()
-        if out_names:
+        traits = self.inputs.traits(**metadata)
+        if traits:
             outputs = self.output_spec().get()
-            for name in out_names:
-                outputs[name] = \
+            for name, trait_spec in traits.iteritems():
+                out_name = name
+                if trait_spec.output_name != None:
+                    out_name = trait_spec.output_name
+                outputs[out_name] = \
                     os.path.abspath(self._filename_from_source(name))
             return outputs