Scanner for MSBuild via Jenkins not analyzing .cs files

Now I have another issue where it says that File does not exist in the analysis context.
I’m getting the following error now it seems it still does not submit analysis support for the .CS files.

WARN: File 'E:\workspace\migrationtool\BusinessLayer\LogWebApplication\App_Start\BundleConfig.cs' referenced by the protobuf 'MetricsInfo' does not exist in the analysis context