Very clearly ~/thesis, because I don't want to see the images related to my thesis with my hinking photos.
Actually, their location is also constrained because the build system for my thesis expects them at a specific place.
> because a file's path (including its name) can be seen as simply another tag
But sometimes, a specific case is easier to understand and use than the general case. And I think that's the case for hierarchy compared to tags.
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