Ensure ingress_reconall option in pipeline config

Author: e-kenneally

CPAC/utils/configuration/yaml_template.py

@@ -108,6 +108,12 @@ def dump(self, new_dict, parents=None):
             fsldir = self.get_nested(self._dict,
                                      ['pipeline_setup', 'system_config',
                                       'FSLDIR'])
+        try:
+            self.get_nested(new_dict, ['surface_analysis', 'freesurfer', 'ingress_reconall'])
+        except KeyError:
+            new_dict = set_nested_value(new_dict, ['surface_analysis', 'freesurfer', 
+                            'ingress_reconall'], False)
+        
         # Add YAML version directive to top of document and ensure
         # C-PAC version comment and 'FROM' are at the top of the YAML
         # output