To MySQL enable slow query log in cPanel server, you can use the following steps.
Add the following to /etc/my.cnf file on the server.
# vi /etc/my.cnf
log-slow-queries=/var/lib/mysql/slow.log
After that, do the following commands to create the file with the right ownership and file permissions
# touch /var/lib/mysql/slow.log
# chmod 660 /var/lib/mysql/slow.log
# chown mysql:mysql /var/lib/mysql/slow.log
Restart the mysql server and check the logs in /var/lib/mysql/slow.log.
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