Merge pull request #572 from chrisfilo/enh/non_standard_return_codes

non standard return codes

Author: chrisgorgo

nipype/interfaces/ants/resampling.py

@@ -99,6 +99,12 @@ def _list_outputs(self):
                                                         self.inputs.out_postfix,
                                                         ext)))
         return outputs
+    
+    def _run_interface(self, runtime):
+        runtime = super(WarpTimeSeriesImageMultiTransform, self)._run_interface(runtime, correct_return_codes = [0,1])
+        if "100 % complete" not in runtime.stdout:
+            self.raise_exception(runtime)
+        return runtime
 
 
 class WarpImageMultiTransformInputSpec(ANTSCommandInputSpec):

nipype/interfaces/base.py

@@ -1247,7 +1247,7 @@ def version_from_command(self, flag='-v'):
             o, e = proc.communicate()
             return o
 
-    def _run_interface(self, runtime):
+    def _run_interface(self, runtime, correct_return_codes = [0]):
         """Execute command via subprocess
 
         Parameters
@@ -1268,7 +1268,7 @@ def _run_interface(self, runtime):
             raise IOError("%s could not be found on host %s" % (self.cmd.split()[0],
                                                                 runtime.hostname))
         runtime = run_command(runtime, output=self.inputs.terminal_output)
-        if runtime.returncode is None or runtime.returncode != 0:
+        if runtime.returncode is None or runtime.returncode not in correct_return_codes:
             self.raise_exception(runtime)
 
         return runtime