diff --git a/workflow/scripts/pool_and_psuedoreplicate.py b/workflow/scripts/pool_and_psuedoreplicate.py
index eb7c76dbc5d9e51fbeb6f47e21e58621db477760..4618965655accf94aa150610cb1d656f07b9ba15 100644
--- a/workflow/scripts/pool_and_psuedoreplicate.py
+++ b/workflow/scripts/pool_and_psuedoreplicate.py
@@ -328,9 +328,9 @@ def main():
                         design_new_df.loc[index, 'control_tag_align'] = \
                                                             path_to_control
 
-        else:
-            path_to_pool_control = cwd + '/' +  pool_control
-            design_new_df['control_tag_align'] = path_to_pool_control
+    else:
+        path_to_pool_control = cwd + '/' +  pool_control
+        design_new_df['control_tag_align'] = path_to_pool_control
 
         # Add in pseudo replicates
         tmp_metadata = design_new_df.loc[0].copy()