Couple of things going on here, most important one is that you are not using hip drive. This is essentially a high bar squat. First thing you need to do is re-read the squat chapter. Your knees never find their correct position until about halfway up, you need to get the bar in a slightly lower position, and you need to get your head looking down.
Re-read the squat chapter, TUBOW will likely be useful for you after doing so, and keep your head in a position that keeps your spine neutral.
Hope this gives you a place to start.