Could you provide more information on the my.cnf file, such as the software it came with and it's content?
If you are taking about the MySQL my.cnf configuration file, there is no need to change it, as there is one database for the servers.
In free accounts you cannot change the my.cnf file. That feature is only available in VPS packages. However, I've heard of magento installation that worked even though the my.cnf file was not modified.
In that that I establish an essence magento.
But at a stage Database Connection, the following message stands out:
1Database server does not support InnoDB storage engine
2Database connection error
Much read about it, everywhere to be told about file editing my.cnf.