As rjn529 said, just let them be. If you go to them when they are whining, they will have "won" and think that whining will make you come every time. The best thing to do is leave an article of clothing with your scent on it in the crate with them. Another reason they whine is because they are used to sleeping with their litter mates and mother. If you want to remedy this, you can buy a clock or a metronome (one of those rhythm/tempo devices) to turn it on at night and put a stuffed animal in the crate with the puppy. The clock/metronome simulates the heartbeat of its mother and the stuffed animal will act as one of its litter mates. This will comfort them during the night. Another thing you can do is leave a night light on and turn the music on low to make them feel like they aren't alone. Most puppies will eventually grow out of this (needing their mother, litter mate, music, etc) once they are about 3 or 4 months old. If not by then, they will by about 6 months. Always keep a chew toy in there for them so if they wake up or don't go right to sleep, they have something to occupy themselves. Good luck.