need to update exclusions with the new atom IDs in case of molecular systems

src/reset_ids.cpp

@@ -16,6 +16,7 @@
 #include "atom_vec.h"
 #include "domain.h"
 #include "comm.h"
+#include "special.h"
 #include "memory.h"
 #include "error.h"
 
@@ -232,6 +233,13 @@ void ResetIDs::command(int narg, char **arg)
   atom->map_init();
   atom->map_set();
 
+  // need to update exclusions with new atom IDs
+
+  if (atom->molecular == 1) {
+    Special special(lmp);
+    special.build();
+  }
+
   // delete temporary atom map
 
   if (mapflag) {