About a month ago we added Windows installers for all of our products as an option to download.  Now you can either download the .zip file or you can download a .exe Windows install file.  The Windows install file will install and/or upgrade your software and will take care of all permission settings making the process quite simple for you.
We have been using these internally for over a year now and they save quite a bit of time when it comes to installing and upgrading our products.  The Windows installer can even be used to install/update multiple locations on different servers.
Let us know if this helps you out and if you have any questions and/or feedback!