diff --git a/python-checks/src/main/java/org/sonar/python/checks/BuiltinShadowingAssignmentCheck.java b/python-checks/src/main/java/org/sonar/python/checks/BuiltinShadowingAssignmentCheck.java
index d305041b47..a86e9d2336 100644
--- a/python-checks/src/main/java/org/sonar/python/checks/BuiltinShadowingAssignmentCheck.java
+++ b/python-checks/src/main/java/org/sonar/python/checks/BuiltinShadowingAssignmentCheck.java
@@ -66,6 +66,7 @@ public class BuiltinShadowingAssignmentCheck extends PythonSubscriptionCheck {
 
   @Override
   public void initialize(Context context) {
+    context.registerSyntaxNodeConsumer(Tree.Kind.FILE_INPUT, ctx -> variableIssuesRaised.clear());
     context.registerSyntaxNodeConsumer(Tree.Kind.ASSIGNMENT_STMT, this::checkAssignment);
     context.registerSyntaxNodeConsumer(Tree.Kind.ANNOTATED_ASSIGNMENT, this::checkAnnotatedAssignment);
     context.registerSyntaxNodeConsumer(Tree.Kind.ASSIGNMENT_EXPRESSION, this::checkAssignmentExpression);