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I guess you can either:
make clean Delete most generated files
make distclean Remove editor backup files, patch leftover files and whatnot
Or (if you have one like in a kernel build) make mrproper Delete the current configuration, and all generated files.
Check the makefile for the cleansing options available.
Generally, making a copy of finished project and the original source is never a terrible idea. and cleaning / diffing those.
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