TrackWinstall is a free tool that informs you about the changes a setup program made to your Windows installation. It shows you what files where added or removed and which files were changed by the setup program. It also lists all Registry changes.
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TrackWinstall uses the differential method, i.e. it compares the system states before and after the installation. However, it doesn't create an MSI installation package. You'll get an activity protocol instead. This is can be useful if there are conflicts between applications or if you want your packager to create a usable setup file.
The programmer's description on the homepage is in German. Google's translation is a bit strange, but understandable. If you start TrackWinstall on an English Windows, it opens with an English-user interface. The help file is in English, too. The tool doesn't have to be installed; it is a stand-alone-program.
TrackWinstall supports Windows 2000 and XP. I tried it on Vista and it seems to work there, too. There is a version with a graphical user interface and a command line tool.