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diff --git a/CMakeLists.txt b/CMakeLists.txt
index ec782239..f163b64d 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -216,7 +216,7 @@ set(FlatBuffers_GRPCTest_SRCS
# source_group(Compiler FILES ${FlatBuffers_Compiler_SRCS})
# source_group(Tests FILES ${FlatBuffers_Tests_SRCS})
-if(EXISTS "${CMAKE_TOOLCHAIN_FILE}")
+if(EXISTS "${CMAKE_TOOLCHAIN_FILE}" AND NOT DEFINED VCPKG_TOOLCHAIN)
# do not apply any global settings if the toolchain
# is being configured externally
message(STATUS "Using toolchain file: ${CMAKE_TOOLCHAIN_FILE}.")
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