How do I get my puppy to stop whining?

I have a 3 month old puppy Dachshund and every since I got her at 5 weeks she whines real bad and really loud at night when I put her in her kennel or in the bathroom.(I put her in the bathroom with a child gate up because I am trying keeping her in there to get potty trained because she uses the puppy pad the whole time shes in there.) I have tried the ticking clock, warm water bottles, keeping radios on. keeping toys and toys like puppy kongs and bones with marrow in there. stuff that she really like but NOTHING is working! What do you suggest because she is only 2 1/2 months and 2 pounds and something. A shock collar wouldn't work,