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If you are teying to upgrade MySQL on cPanel server check this link Upgrade MySQL on cPanel Server

Below are the steps how to upgrade your MySQL version for PCI compliance or some other uses.

First check what is your MySQL version using the below command

[[email protected] ~]# rpm -qa | grep mysql

Remove all the old mysql version using the command

rpm -e --nodeps mysql-5.1.69-1.el6_4.x86_64 mysql-devel-5.1.69-1.el6_4.x86_64 mysql-server-5.1.69-1.el6_4.x86_64 mysql-libs-5.1.69-1.el6_4.x86_64

Now download and install MySQL-5.6 using the below command.

mkdir MySQL
cd MySQL
tar -xvf MySQL-5.6.16-1.el6.x86_64.rpm-bundle.tar
yum install MySQL*rpm


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