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I work on doom-emacs and keep personal configuration in .doom.d, thus leave the gene config .emacs.d.

Today, I re-installed doom.emacs to .emacs.d, but find all my bookmarks disappeared when launch in.

How can I save a personal bookmarks file?

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Did you clobber your original ~/.emacs.d/ directory? You may have lost all manner of things if you've done that.

Assuming you backed it up first, just grab the ~/.emacs.d/bookmarks file from your backup.

If there's no such file, check C-hv bookmark-default-file to see what it was actually called.

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