I have just updated my local galaxy instance today to the most recent version (after 3 years without updating).
I had hoped my histories and data would be kept, but when I loaded the new galaxy, while my usage was still recorded as 2.8 Tb, all datasets and histories had disappeared. I tried to look for archives histories, but nothing came.
Is there a way to recover this kind of data? Where are all the data stored within the galaxy path? is it the temp folder? Is there any way to recover that?
Did you backup the database before updating?
If not, data may be actually lost.
It is recommended to update the server incrementally through releases. Why? The data model can change in small ways, and at each update, there is a migration process that moves content old → new. You should still be using backups but each “jump” is smaller this way, and much easier to troubleshoot. Big jumps (skipping releases) are universally problematic.
This training covers the processes: Server Maintenance: Cleanup, Backup, and Restoration
I hope that helps, and also hoping everything can be restored!
We definitely don’t delete data on upgrade. Are you properly logged in and using the same database connection ?
Thank you for your reply and advice!
In the end I have re-run all my analysis.
Will be careful to update frequently and backup data before doing so.