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[release/0.9] Update proto files to v3
Many files were last updated with `github.com/gogo/protobuf@v1.2`, hence the `proto.GoGoProtoPackageIsVersion2` assertion in the `*.pb.go` files. Regenerate them using new version (v1.6.2) of `protoc-gen-gogoctrd`. Signed-off-by: Hamza El-Saawy <hamzaelsaawy@microsoft.com>
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