Hello. I have a question. I purchased the Farmer Edition. I am using Unity. I am testing various things. When doing a watering animation, do I have to move the position and depth of the water container myself?

Yes, this is the case for most animations with objects. The animations with larger cells (scythe, bug net, fishing pole) should line up, because they're as big or bigger than the character sprite's 64x64 cell, but the other tools are on smaller cells so you'll need to find a position that works for you. You can find examples in the animation guide.