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Changing my WMV formatted video files into a different video format?
The mencoder program can convert to and from virtually any format. For WMV, you need to have the win32codecs package, but if you can play WMV videos, then you have it. Note that you can't convert encrypted videos.
mencoder happens to be a _VERY_ complicated program, but you can find some documentation at:
ChapterÂ*13.Â*Basic usage of MEncoder
I'm sure that there are GUIs out there. Try Googling for a GUI for ffmpeg or mencoder.