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It would be better to have this as a FUSE filesystem though - you mount it on an empty directory, point the tool at your unorganised data and let it run its indexing and LLM categorisation/labelling, and your files are resurfaced under the mountpoint without any potentially damaging changes to the original data.
The other option would be just generating a bunch of symlinks, but I personally feel a FUSE implementation would be cleaner.
It's pretty clear that actually renaming the original files based on the output of an LLM is a bad idea though.