Hmmm... you don't "extract" the notes from a MIDI file - the music is already stored in that form inside it. What you can do is display it in partiture (sheet) form and print it. I have some old program that can do that, it's called MIDIStudio, I think...
UPDATE: Yes, it's MIDI Studio. You can find it here:
http://www.sonicspot.com/midistudio/midistudio.html
And you can't just "convert" songs to MIDI files, you have to sequence the music properly (play the music on a synthesizer and simultaneously send the data to the computer to store it).
MIDI music vs. waveform samples is analogous to vector graphics vs. raster images...
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