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The appinfo/database.xml has to be removed and the app has to supply its lib/Migration/ scripts to upgrade the database schema between versions. See owncloud/music#865 for a sample in the music plugin and especially the commit owncloud/music@6982d91
Just in case it wasn't noticed - Nextcloud improved policy regarding changes in core to ease app developers in maintaining compatibility with newer Nextcloud versions:
https://docs.nextcloud.com/server/latest/developer_manual/basics/storage/migrations.html
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