I am not using Linux but I have used an easy trick to print games for study that will work for Linux. The trick is to copy the epub (as a backup) and then change the file type from .epub to .zip. Now you can extract it to get META-INF and OPS directories. OPS has the html files (xhtml in my case). I just dragged the xhtml I wanted into Chrome and it loaded fine. Then I could print from Chrome to PDF (I use software called CutePDF on Windows but I remember that Linux usually has pdf libraries built in, at least on Ubuntu).
My issue from here is that the PDF printed from the xhtml was a bit glitchy in that if I tried to edit the text using Adobe then it would cause deletions in other portions of the text or cause it to go wonky. I vaguely remember that the pdf text could not be copied either.
Anyway, I like to print it out in booklet format and stitch it together. Maybe up to 60 pages (in booklet format) can work but after that it gets too thick and you need to make signatures. Staples also work.
I've seen the Japanese style of binding on older books and thought about doing it myself, but my impression is that it might not lay flat very well. Maybe a certain type of paper is needed.