program installation question

Hi all.

I have a question about the package & deployement wizard. I need to have my program installed on pc's for the library system where I work. I have used the package & deploymebt wizard for installation. On most machines where it is installed, it needs to update some system files and restart to complete the installation. The problem is that these machines have a line in the autoexec.bat file which deletes the windows\temp and the windows\temporary internet files on startup. It seems that this deletes the system files which are being updated. This means that the files of course do not ever gut updated. I can bypass this by pressing SHIFT while I restart or modifying the autoexec.bat file. Unfortunately, this program needs to be installed by people other than me and these methods would be too cumbersome. Anyway, is there any way to determine where the temporary system files (the ones being updated) can be stored. Or maybe is there a way to restart windows bypassing autoexec.bat through code in the installation script? Or any other ideas that might work?

Thanks in advance,

Bradley B