Oops: Your installation is managed directly via os packages, you cannot use the in-app updater.

How-to upgrade?

1. Backup your Database

Use either a command line tool (e.g. mysqldump) or a GUI-based manager (e.g. phpMyAdmin) to entirely backup your database content.

2. Update the packages via command line

Depending on your OS, you may have to issue one of the following command:
$ yum update pydio
or
$ apt-get install --only-upgrade pydio

Let the package manager do its job.

3. Manually upgrade the database

Identify optional upgrade scripts

After the packages upgrades, please have a look inside the /var/lib/doc/pydio/upgrade/db folder. This folder may contain a set of scripts named with version numbers for upgrading from one version to another. If you find that one or many scripts are required to go from your previous version to the new one, you will have to apply them all. For example, if you are running v6.0.5 and just upgraded to v6.0.8, you may have to run the scripts 6.0.5-6.0.6, 6.0.6-6.0.7 and 6.0.7-6.0.8.

Scripts are also suffixed with the according DB extension: .mysql is for MySql / MariaDB, .pgsql for Postgres and .sqlite for SQlite. Make sur to use the correct one.

Apply the scripts if necessary

Once you have collected the necessary scripts, use either a GUI-based tool to connect to your DB and exectute the SQL queries (like PhpMyAdmin for example) or apply the SQL by using command line.
For example for MySql:
$ mysql -u adminuser -p DBNAME << pydio-core-upgrade-6.0.7-6.0.8.mysql