Making InnoDB teh default for new tables

I’m very glad to finally see InnoDB support, but it seems that new tables are still created as MyISAM by default.
Does anyone know any way to set it up so that InnoDB is the default table type for my databases?
I use generated scripts to create/alter tables (via the Hibernate persistance library, if anyone is interested) - I seldom create a table manually. So I need a way to make all new tables be InnoDB automatically.