Fixed duplicate problem

src/call.py

 import re
 import json
+import copy
 
 
 from .code_ import Code
@@ -376,11 +377,17 @@ class Call(Executor):
             subworkflow = self.get_subworkflow_from_name(tab_call[0])
             fun = self.get_function_from_name(tab_call[0])
             if(process!=None and subworkflow==None and fun==None):
-                #temp = process
-                ##If the lements need to duplicated -> then we need to duplicate it
-                #if(self.get_duplicate_status()):
-                self.first_element_called = process
-                #print(process.get_name(), process.call)
+                #If the lements need to duplicated -> then we need to duplicate it
+                temp = process
+                if(self.get_duplicate_status()):
+                    print(process.get_number_times_called())
+                    if(process.get_number_times_called()>0):
+                        print("here")
+                        temp = copy.deepcopy(process)
+                        temp.set_alias(f"{process.get_name()}_{process.get_number_times_called()}")
+                self.first_element_called = temp
+                temp.incremente_number_times_called()
+                print(process.get_name(), process.call)
             if(process==None and subworkflow!=None and fun==None):
                 self.first_element_called = subworkflow
             if(process==None and subworkflow==None and fun!=None):

src/process.py

@@ -30,11 +30,18 @@ class Process(Nextflow_Building_Blocks):
         self.initialise()
         self.initialised = True
         self.call = []
+        self.number_times_called = 0
         ##It's important this is last
         #self.condition = Condition(self)
 
     def set_alias(self, alias):
         self.alias = alias
+
+    def get_number_times_called(self):
+        return self.number_times_called
+    
+    def incremente_number_times_called(self):
+        self.number_times_called+=1
     
     def set_call(self, call):
         self.call.append(call)