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Install cask that extends the brew command :

brew install phinze/cask/brew-cask

Install calibre using cask :

brew cask install calibre

Setup $PATH for calibre (add ebook-convert and other commands to $PATH) :

export PATH="~/Applications/calibre.app/Contents/MacOS/:$PATH"

Or add it to your shell's .profile with :

echo 'export PATH=~/Applications/calibre.app/Contents/MacOS/:$PATH' >> ~/.profile

Now ebook-convert should be available :)

As of 2016, it looks like you no longer have to edit your PATH.

As of 2017, it looks like you no longer need to run brew install phinze/cask/brew-cask.

brew cask install calibre should be enough to gain access to the ebook-convert command on modern OSX.

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