Convert tables to other Engine
La ultima vez que trate de convertir todas las tablas de engine a otro fue un dolor de cabeza.
Esto lo hace mas facil:
SET @DATABASE_NAME = 'name_of_your_db';
SELECT CONCAT('ALTER TABLE ', table_name, ' ENGINE=InnoDB;') AS sql_statements
FROM information_schema.tables AS tb
WHERE table_schema = @DATABASE_NAME
AND `ENGINE` = 'MyISAM'
AND `TABLE_TYPE` = 'BASE TABLE'
ORDER BY table_name DESC;
http://stackoverflow.com/questions/3856435/how-to-convert-all-tables-from-myisam-into-innodb