Remove the GGs

src/workflow.py

@@ -743,7 +743,11 @@ George Marchment, Bryan Brancotte, Marie Schmit, Frédéric Lemoine, Sarah Cohen
         return emits
 
 
-
+    def remove_GG_from_code(self, code):
+        def replacer(match):
+            return match.group(1)
+        return re.sub(f"(\w+)_GG_\d+", replacer, code)
+    
     #Method which rewrites the workflow follwong the user view
     #Conert workflow to user_view only makes sense when the option duplicate is activated -> otherwise is doesn't make sense + it makes the analysis way more complicated
     def convert_workflow_2_user_view(self, relevant_processes = [], render_graphs = True):
@@ -1172,6 +1176,7 @@ George Marchment, Bryan Brancotte, Marie Schmit, Frédéric Lemoine, Sarah Cohen
             code = code.replace("$OR$", "||")
             code = self.put_modified_operations_back(code, map_element_dico)
             code = remove_extra_jumps(format_with_tabs(code))
+            code = self.remove_GG_from_code(code)
             f = open(self.get_output_dir()/ "debug" / "rewritten.nf", "w")
             f.write(code)
             f.close()