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logrotate will rotate all *log files. So if your ftp logs are named *log, then yes it will rotate them. As for the webalizer, you should name each log file individually, so is shouldn't matter what else is in the directory.
Webalizer will evaluate any log files. You will need to visit www.webalizer.com for instructions on how to use it. Webalizer is versatile enough to monitor mouse log files (that is if you log your mouse movements). You just have to tell it what to look for and how to catalog the information.
hey guys..this threat has helped me with my question..however im just confused on 1 thing...in your example u called the folder webalizer so users can view the stat at domain.com/webalizer i called mine stats....what are should the perms and ownership be for that file...and then webalizer runs should it create those webalizer files in that folder automatically? i tried running webalizer by typing /usr/bin/webalizer in the command line and nothing was generated