One of the projects I am involved in is building GZigZag, which is an implementation of a new systems paradigm from Ted Nelson. In ZigZag, everything is in cells or in their interconnections.
Files are indeed obsolete.
If we want to find an answer to the problem of organising data we should not look at ourselves, the geeks, the techies to whom hierarchy and technology are the answers. No, we should turn ourselves to dreamers, idealists - designers who may not be able to understand object constructors but whose designs are conceptually sound and free of distracting technological artefacts. I am fortunate in being able to work under the direction of Ted Nelson, who is such a person. Our team is building an alternative software paradigm from ground up, called ZigZag, which has no files and no directories. It looks very promising, but like all good things, it requires some getting used to.