File Importer Storing

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I've been scouring the site trying to find anyone who might have had a need for this, but haven't had any luck.

On a website, we had a request to have prettier links to uploaded files. Managers were supplying the links to PDFs and ZIPs and because of the prefix in importer.php, they're getting ugly URLs (domainname.com/files/1234/5678/9012/filename.pdf). Originally, I thought it'd be simpler just to remove the prefix and store everything in /files, but that probably isn't the safest route. Instead, I'd like to create an alias to a directory in the root that holds all files of a specific type. For example:

PDFs will be stored in /files/[prefix]/filename.pdf and will also create an alias or duplicate in ROOT/pdf/.

Any thoughts? Any help at all would be greatly appreciated.

Best,
Mike