There are only two endings, I think. The "bad" ending happens if you pray too much at the crystals and break them. I didn't even know you could do that; the game gave me no indications it was even possible. Sure a character or two hints at it, but it's totally not obvious you can keep hitting "X" or whatever after the crystal gets full. So I wound up thinking the "good" ending was just normal :/
So if you want the good ending, just stop tapping the button when it's time. Easy peasy.
So if you want the good ending, just stop tapping the button when it's time. Easy peasy.