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You can use the supplied Samba client software to login and copy files to a Windows share - see smbmount and smbtar man pages, so this is easy to script.
Bear in mind that the majority of files on your system are provided by packages, and so you already have "backups" for these. You could use tar or smbtar to backup the entire system, but only /etc, /home, /root and /var should contain user or admin created files.
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