This post continues Getting rid of huge ibdata file, no dump required, part I, where I describe way of converting your single-tablespace InnoDB database into a file-per-table one, without the pain of exporting and importing everything at once.
In previous part we put aside the issue of foreign keys. We address this issue now.
What if my InnoDB tables have foreign keys?
MyISAM does not support them, so you can't just ALTER an InnoDB table to MyISAM and back into InnoDB, and expect everything to work.
Alas, this calls for additional steps (i.e. additional ALTER commands). However, these still fall well under the concept of "do it one table at a time, then take time to recover your breath
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