Recently while we were building a slave with a newer version of MySQL 5.1 from an InnoDB Hot backup, the following error occurred when we ran "mysql_upgrade":mysql.time_zone OKmysql.time_zone_leap_second OKmysql.time_zone_name OKmysql.time_zone_transition OKmysql.time_zone_transition_type OKmysql.user OKRunning 'mysql_fix_privilege_tables'...ERROR 13 (HY000) at line 311: Can't get stat of './mysql/general_log.CSV' (Errcode: 2)ERROR 13 (HY000) at line 316: Can't get stat of './mysql/slow_log.CSV' (Errcode: 2)FATAL ERROR: Upgrade failedThe problem is that in MySQL 5.1, it is possible to log the slow query log and general log to tables in the "mysql" schema (source: Selecting General Query and Slow Query Log Output Destinations). These tables are  []

If you are using InnoDB Hot Backup utility and the innobackup.pl wrapper script, be very careful if you are not running backups under the system "mysql" user. There is a bug which causes InnoDB Hot Backup to sometimes report a successful backup when it actually failed.