Configure MySQL to create an innodb file per table to prevent ibdata1 growing indefinitely #388

http://stackoverflow.com/questions/3456159/how-to-shrink-purge-ibdata1-file-in-m
ysql

"But you can configure MySQL so that each table, including its indexes, is 
stored as a separate file. In that way ibdata1 will not grow as large. 
According to Bill Karwin's comment this is enabled by default as of version 5.6 
of MySQL.

It was a while ago I did this. However, to setup your server to use separate 
files for each table you need to change my.cnf in order to enable this:"

[mysqld]
innodb_file_per_table