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You can make use of "Skip Code Generation" option in the Build Settings. To open Build Settings, right click on the project and then set "Skip Code Generation" to True as shown below:
If the variable is not affecting "Generated Source", you can add <your_own>.h and <your_own>.c in your project by Add New at Header Files folder and Source Files folder in the Workspace Explorer like below.
adding a new header file
adding a new source file
I did similar thing in my sample below.
I added tty_utils.h and tty_utils.c
But if you need to modify the generated source, although IMHO it is not recommended,
I have no idea to workaround it.