I just added the following lines in /etc/mysql/my.cnf after I converted one database to use InnoDB engine.

innodb_buffer_pool_size = 2560M
innodb_log_file_size    = 256M
innodb_log_buffer_size  = 8M
innodb_flush_log_at_trx_commit  = 2
innodb_thread_concurrency   = 16
innodb_flush_method = O_DIRECT

But it raise "ERROR 2013 (HY000) at line 2: Lost connection to MySQL server during query" error restarting mysqld. And mysql error log shows the following

InnoDB: Error: log file ./ib_logfile0 is of different size 0 5242880 bytes
InnoDB: than specified in the .cnf file 0 268435456 bytes!
100118 20:52:52 [ERROR] Plugin 'InnoDB' init function returned error.
100118 20:52:52 [ERROR] Plugin 'InnoDB' registration as a STORAGE ENGINE failed.
100118 20:52:52 [ERROR] Unknown/unsupported table type: InnoDB
100118 20:52:52 [ERROR] Aborting

So I commented out this line

# innodb_log_file_size  = 256M

And it restarted mysql successfully.

I wonder what's the "5242880 bytes of log file" showed in mysql error? It's the first database on InnoDB engine on this server so when and where is that log file created? In this case, how can I enable innodb_log_file_size directive in my.cnf?

EDIT

I tried to delete /var/lib/mysql/ib_logfile0 and restart mysqld but it still failed. It now shows the following in error log.

100118 21:27:11  InnoDB: Log file ./ib_logfile0 did not exist: new to be created
InnoDB: Setting log file ./ib_logfile0 size to 256 MB
InnoDB: Database physically writes the file full: wait...
InnoDB: Progress in MB: 100 200
InnoDB: Error: log file ./ib_logfile1 is of different size 0 5242880 bytes
InnoDB: than specified in the .cnf file 0 268435456 bytes!

Resolution

It works now after deleted both ib_logfile0 and ib_logfile1 in /var/lib/mysql