Just wondering if this is the method to use when you change CFLAGS or USE variables and want everything (system too?) recompiled with the new settings?

Andreas Claesson wrote:
The easy (and correct) way for doing what you want to do is:

emerge --emptytree world

This makes emerge "forget" what you have installed and the result is
that all system packages and all packages mentioned in your world,
including all dependencies, will be re-emerged.

/Andreas

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