must reset "eval_in_progress[]" flags to avoid bogus circular dependency errors

src/input.cpp

@@ -888,6 +888,7 @@ void Input::clear()
   lmp->destroy();
   lmp->create();
   lmp->post_create();
+  variable->clear_in_progress();
 }
 
 /* ---------------------------------------------------------------------- */

src/variable.cpp

@@ -879,6 +879,17 @@ void Variable::purge_atomfile()
     if (style[i] == ATOMFILE) remove(i);
 }
 
+/* ----------------------------------------------------------------------
+   called by "clear" command to reset all "in_progress" state variables
+   to avoid spurious "variable has circular dependency" issues
+------------------------------------------------------------------------- */
+
+void Variable::clear_in_progress()
+{
+  for (int i = 0; i < nvar; ++i)
+    eval_in_progress[i] = 0;
+}
+
 /* ----------------------------------------------------------------------
    called by python command in input script
    simply pass input script line args to Python class

src/variable.h

@@ -35,6 +35,7 @@ class Variable : protected Pointers {
   void set_arrays(int);
   void python_command(int, char **);
   void purge_atomfile();
+  void clear_in_progress();
 
   int equalstyle(int);
   int atomstyle(int);