My dog doesn't like her crate, not sure what to do?

We crate our yorkie/chihuahua mix during the day when we're not home because she still doesn't understand the "holding it in" thing unless she's supervised. But she HATES her crate. It's big enough for her, and could easily fit two of her in there. I also put some of her favorite toys in there as well as some fleece blankets and I leave the radio on, but she SQUAKS like I'm hurting her when I leave her in there and other than that, she NEVER barks ... never. It's awful. I've tried training her that it's not a bad thing to be in her crate, like talking in a positive tone when she goes in. But even then, she won't go in by herself ... eventually I have to put her in because I don't have time in the mornings to sit there with her and wait. She runs away from it when she knows it's time. Even at night, when she sleeps in it, she doesn't mind it. I just don't know what to do because I don't want her to be unhappy, but she's NOT ready to roam free in the apartment for her own safety.