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If the collation of the table changes in the schema the migration is not changing it to the database. For example if I first create the tmp table with MySQL default collation (latin1) and charset and then add the following line to schema.xml the migration script does not notice the change.
<parameter name="Collate" value="utf8_unicode_ci"/>
<parameter name="Charset" value="utf8"/>
Looks like it is not supported yet..