Turning on logging in mySQL will probably tell you exactly
what's happening with
the connector (http://dev.mysql.com/doc/mysql/en/Log_Files.html)

Eliminate a server mis-configuration/firewall issue by using telnet:
telnet $your_mysql_host 3306.

mySQL should reply with something.

OT, be careful if upgrading to 4.1.  You'll need to upgrade your grant
tables or use the --old-passwords flag - otherwise Cocoon won't be able to
connect with the new password format.

TB



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