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There was a race. The test case was expecting the slave to start processing a particular DELETE statement, then the test would stop the slave at this point. But there was missing something to wait until the slave would actually reach this point; thus depending on timing it was possible that the slave would be stopped too early, causing .result file difference. Fixed by adding an appropriate wait to the test case.
How to run. =========== ./mysql-test-run.pl --suite=rpl --mysqld=--binlog-format=mixed