All though not a direct replacement I use use a program called CherryTree which is amazing, it does all the usual stuff (hierarchical notes) etc, what I really like is you can do everything from the keyboard and it allows you to embed code and stuff as well.
Don't be put off by the website the product is much better than the site would imply.
One of the things I like is that you can store notes in an SQLite DB and that makes syncing easy via Dropbox, if you pass it the path to the storage file on the CLI it will open that as well so I have it bound to a hotkey combination which lets me quickly open it, edit and close so it stays out the way when I don't need it and is there when I do.
Don't be put off by the website the product is much better than the site would imply.
http://www.giuspen.com/cherrytree/
One of the things I like is that you can store notes in an SQLite DB and that makes syncing easy via Dropbox, if you pass it the path to the storage file on the CLI it will open that as well so I have it bound to a hotkey combination which lets me quickly open it, edit and close so it stays out the way when I don't need it and is there when I do.