diff --git a/sisyphus/manager.py b/sisyphus/manager.py
index 44a1e0f..1ff592d 100644
--- a/sisyphus/manager.py
+++ b/sisyphus/manager.py
@@ -548,11 +548,11 @@ def maybe_clear_state(state, always_clear, action):
                 self.print_state_overview(verbose=True)
             elif answer.lower() == "y":
                 self.link_outputs = True
-                threading.Thread(target=create_aliases, args=(self.sis_graph.jobs(),)).start()
-                threading.Thread(
-                    target=self.check_output,
-                    kwargs={"write_output": self.link_outputs, "update_all_outputs": True, "force_update": True},
-                ).start()
+                self.thread_pool.apply_async(create_aliases, self.sis_graph.jobs())
+                self.thread_pool.apply_async(
+                    self.check_output,
+                    kwds={"write_output": self.link_outputs, "update_all_outputs": True, "force_update": True},
+                )
                 break
             elif answer.lower() == "u":
                 self.link_outputs = True