Apply module scope to file validation checks

internal/validation/local_replacements.go

@@ -13,7 +13,7 @@ import (
 func checkLocalReplacements(ctx context.Context, tree *CandidateTree) error {
 	var findings []Finding
 	replacementsByObjectID := make(map[string][]moduleReplacementSummary)
-	for _, entry := range tree.Entries() {
+	for _, entry := range tree.inputEntries {
 		if err := ctx.Err(); err != nil {
 			return &Failure{Check: LocalReplacements, Findings: findings, Cause: err}
 		}