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emerge,apt-get,yum... all update your system. This will at some point replace either a runtime dependency or a process (which is still running).
This oneliner will list what processes need to be restarted
There is 1 alternative - vote for the best!
This command can be installed in debian by the package debian-goodies. It also outputs the /etc/init.d/ commands that you need to do.
If you can do better, submit your command here.
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