At the moment I am docker compose down everything, run the backup of their files and then docker compose up -d again afterwards. This sort of downtime in the middle of the night isn't an issue for home services but its also not an ideal system given most wont be mid writing a file at the time of backup anyway because its the middle of the night! But if I don't do it the one time I need those files I can guarantee it will be corrupted so at the moment don't feel like there are a lot of other options.