I really like to use krita together with blender (and, for this video, Natron). I even found out Natron can import directly .kra files inside of projects !

You can see the result at https://vimeo.com/159791867

And those who are interested can take a look at the ulule page for the associated project (all illustrations are done using krita and mypaint). http://fr.ulule.com/meurtre-jdr/