Sounds like you have lost either the database or the home directory, and possibly both. There's no point proceeding with an attempt to re-install or recover until you know what has done this damage and why.
Check the system logs to see what has been done.
...PermissionsStartOnly=true User=www-data Group=www-data ExecStart=/opt/jira/bin/startup.sh ExecStop=/opt/jira/bin/shutdown.sh TimeoutStartSec=120 TimeoutStopSec=600 PrivateTmp=true [Install] WantedBy...
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