Compiler Diagnostic Option defined for a SysConfig output directory is not applied when the sources in that directory are built

Steps to reproduce:

1. Create or import any SysConfig project into your workspace
2. In the project SysConfig Advanced Options define a manual output directory
3. For that directory only under Diagnostic Option "Disable specified category of warning diagnosticcs (Wno) add "typedef-redefinition"
4. Re-build the project - option -Wno-typedef-redefinition does not appear in the invocation for the files in the SysConfig output directory