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With creating the new database on your pi and the resulting error I think you are right: it has to do with how the hard drive is mounted.
Maybe try to mount the hard drive manually and see what happens.
I either "boot" from the hard drive (via SD-card) with a rather old method. So I do not need to mount it. It's my / drive.
If and when I mount an additional drive I do it manually.
When I'm behind a PC/Mac I will put together some instructions about Samba.
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