mysoogal, explain exactly what you want to do on upload completion.
For instance, in my system i use mencoder to create i light flash video preview of uploaded video files. This preview is created in a [previews] subfolder . When user clicks on preview button, rawr player points to the .flv file in [previews] and play.
When user wants to delete the original video file, a batch script automatically deletes its related preview, so the system is kept clean.
Maybe do you want to delete the original file once it has been encoded?