Login as root

root
vitro123

Change Unix Passwords

Change root password
passwd
YOUR_NEW_ROOT_SYS_PASSWORD

passwd -u vitro
YOUR_NEW_VITRO_SYS_PASSWORD

Change MySQL Passwords

mysql -u root -p'vitro123';
use mysql;
SET PASSWORD FOR 'vitroweb'@'vitro' = PASSWORD('YOUR_NEW_MSYQL_VITRO_PASSWORD');
SET PASSWORD FOR 'root'@'localhost' = PASSWORD('YOUR_NEW_MSYQL_PASSWORD');
SET PASSWORD FOR 'root'@'vitro' = PASSWORD('YOUR_NEW_MSYQL_PASSWORD');
SET PASSWORD FOR 'root'@'127.0.0.1' = PASSWORD('YOUR_NEW_MSYQL_PASSWORD');

Change Tomcat Password

nano /usr/local/tomcat/conf/tomcat-users.xml

...

Restart tomcat
/etc/init.d/tomcat restart

Change Application Settings

Edit VIVO MySQL connection string
nano /usr/local/vivo/deploy.properties
Change
VitroConnection.DataSource.password = vitro123

...

Click "Submit Changes" button

Patch Software Packages

apt-get update
apt-get upgrade