Tenants moved out with minor damages

[Jav Caprietta]

I just had tenants move out after a one year lease. For the most part the house is in good condition but there are a few areas that were damaged. Two sliding closet doors are missing, there are holes in the wall that were not appropriately patched and most importantly there are areas on the wooden floor that is damaged. One area is obviously from a fish tank which the lease did not prohibit and the other is a pain or chemical stain which definitely won't come off. How should I appropriately charge for the floor? If I am unable the get the replacement pieces I need is it reasonable to hold the entire deposit?