diff --git a/llvm/tools/llvm-profgen/PerfReader.cpp b/llvm/tools/llvm-profgen/PerfReader.cpp
--- a/llvm/tools/llvm-profgen/PerfReader.cpp
+++ b/llvm/tools/llvm-profgen/PerfReader.cpp
@@ -1212,6 +1212,7 @@
   warnTruncatedStack();
   warnInvalidRange();
   generateUnsymbolizedProfile();
+  AggregatedSamples.clear();
 
   if (SkipSymbolization)
     writeUnsymbolizedProfile(OutputFilename);