In a word, Sqlite. You can always put your files in a file. ("Yo dawg, I heard you like files so I...") Depending on your use cases a zip file can work, e.g.

In a word, Sqlite. You can always put your files in a file. ("Yo dawg, I heard you like files so I...") Depending on your use cases a zip file can work, e.g. Python packages can be imported from within a zip file, and the standard lib is distributed that way.