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I have tryed many scripted ways to do this (embedded scripts in my IDE) but it is not a reliable way to do it.
Do you know mac OS applications permitting to backup (incrementaly ?) selected folders to a remote server using SSH, SCP, SFTP ?
Check this link: http://blog.interlinked.org/tutorials/rsync_time_machine.html
How to make a TimeMachine with the above mentioned rsync command.
Add the -E paramater, and @Ned told. And be sure than you’re not using an GNU version, for example from the macports. To ensure this, always use the full pathname to original Apple’s rsync: /usr/bin/rsync.