Inquisitor warning related to S and SRC_URI is no longer universally helpful
WARNING: A source matching the basename "atlasgen" was not declared in SRC_URI ['Project_Atlas-45399-0-6-4-1579483867']
This has been a problem for a while, as InstallDirs no longer (since a while back actually) refer exclusively to directories unpacked from sources. As in the above example, certain directories can be generated during installation and don't correspond to any source file name. It's also possible to manually unpack a source to the non-standard directory (though I don't know why you would do this).
In short, the warning is generally useful, but edge cases where it's not are piling up and there's not even a mechanism to indicate that the warning doesn't apply. It should probably just be removed entirely, as I don't think there's a better way of fixing it.