How can I open my extension’s pop-up with JavaScript?

The Chromium dev team has explicitly said they will not enable this functionality. See Feature request: open extension popup bubble programmatically :

The philosophy for browser and page action popups is that they must be triggered by user action. Our suggestion is to use the new html notifications feature…

Desktop notifications can be used progammatically to present the user with a small HTML page much like your popup. It’s not a perfect substitution, but it might provide the type of functionality you need.

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