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Idk how this crept in here, but migrations weren't running, and schema wasn't being setup, because the mysql container has self-signed ssh keys. I've disabled key validation for migrations.
I've also fixed the backup task that runs on startup, my also disabling ssl, and then adding a workaround (--no-tablespaces) for this issue:
https://dba.stackexchange.com/questions/271981/access-denied-you-need-at-least-one-of-the-process-privileges-for-this-ope
This should not be a security risk because mysql and backend both run in docker containers on the same machine, and because this only happens once at startup.