connector mxj can't init db on linux

Hi all,

I'm using connector mxj 1.1.6 with Java 1.5.0_06 on Debian Linux.

I have an small program that fills the database and a second one uses 
this db. First, I filled the db and the program exited with the 
following output:

[MysqldResource] stopping mysqld (process: 28975)
060427 14:43:32 [Note] 
/TL/usr1/schlandi/work/master_thesis/GOTaxExplorer/fsst/bin/mysqld: 
Normal shutdown

060427 14:43:33  InnoDB: Starting shutdown...
060427 14:43:34  InnoDB: Shutdown completed; log sequence number 0 43634
060427 14:43:34 [Note] 
/TL/usr1/schlandi/work/master_thesis/GOTaxExplorer/fsst/bin/mysqld: 
Shutdown complete

[MysqldResource] clearing options
[MysqldResource] shutdown complete

Then I started the second application but it always gives me the 
following error:
[MysqldResource] launching mysqld (driver_launched_mysqld_1)
InnoDB: Unable to lock ./ibdata1, error: 11
InnoDB: Check that you do not already have another mysqld process
InnoDB: using the same InnoDB data or log files.
060427 15:01:51  InnoDB: Retrying to lock the first data file
...
InnoDB: Unable to lock ./ibdata1, error: 11
InnoDB: Check that you do not already have another mysqld process
InnoDB: using the same InnoDB data or log files.
060427 15:03:31  InnoDB: Unable to open the first data file
InnoDB: Error in opening ./ibdata1
060427 15:03:31  InnoDB: Operating system error number 11 in a file 
operation.
InnoDB: Error number 11 means 'Resource temporarily unavailable'.
InnoDB: Some operating system error numbers are described at
InnoDB: http://dev.mysql.com/doc/mysql/en/Operating_System_error_codes.html
InnoDB: Could not open or create data files.
InnoDB: If you tried to add new data files, and it failed here,
InnoDB: you should now edit innodb_data_file_path in my.cnf back
InnoDB: to what it was, and remove the new ibdata files InnoDB created
InnoDB: in this failed attempt. InnoDB only wrote those files full of
InnoDB: zeros, but did not yet use them in any way. But be careful: do not
InnoDB: remove old data files which contain your precious data!
060427 15:03:31 [ERROR] Can't init databases
060427 15:03:31 [ERROR] Aborting


I checked that there is no other mysqld instance running (pstree, 
netstat) and tried to run the second program on a different machine. The 
code used to connect to the database is identical in both cases.

Does anybody have an idea what the problem could be?

Thanks,
Andreas

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