diff --git a/runtime/native_stack_dump.cc b/runtime/native_stack_dump.cc
index f68a229..b7c3665 100644
--- a/runtime/native_stack_dump.cc
+++ b/runtime/native_stack_dump.cc
@@ -287,6 +287,10 @@
 static bool RunCommand(const std::string& cmd) {
   FILE* stream = popen(cmd.c_str(), "r");
   if (stream) {
+    // Consume the stdout until we encounter EOF when the tool exits.
+    // Otherwise the tool would complain to stderr when the stream is closed.
+    char buffer[64];
+    while (fread(buffer, 1, sizeof(buffer), stream) == sizeof(buffer)) {}
     pclose(stream);
     return true;
   } else {