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Copy /usr/local from the backup to /usr/local on the new machine.
/usr/local
Then run:
xcode-select --install brew cask install --force java java7 asepsis virtualbox vagrant gpgtools totalfinder xquartz flash-player adobe-creative-cloud crashplan istat-menus little-snitch logitech-control-center wireshark silverlight open '/opt/homebrew-cask/Caskroom/adobe-creative-cloud/latest/Creative Cloud Installer.app' open '/opt/homebrew-cask/Caskroom/little-snitch/3.5.3/Little Snitch Installer.app' open /opt/homebrew-cask/Caskroom/battle-net/latest/Battle.net-Setup-enUS.app