On short trips, almost everyone eats about 15-20 calories per day per pound of body weight: http://www.backpackinglight.com/cgi-bin/backpackinglight/forums/thread_display.html?forum_thread_id=35516 Here, "short trips" includes the JMT. The figure can be much higher if you're doing a long through hike (multiple months, where you can't go into calorie debt), if you're doing really high miles (30 mi/day or more), or if you're in cold weather (which you won't be). For your body weight, that works out to about 2800-3800 cal/day, so you're in the right ballpark, maybe a little low.
"I figured stashing some high calorie food in the resupply that I can eat there before packing up and heading on so if I'm deficient at all I can make up for it there."
I did the JMT this summer, and had sort of the same idea, but it didn't really work out well. When I resupplied at Red's Meadows, what I really wanted was the food at the cafe (tuna sandwich and milkshake!!!), not the canned peaches I'd mailed myself. When I resupplied at MTR, I tried to stuff down as much pork liver pate as I could stand, but basically there was only so much food I was hungry for.
"along with % of protein/carbs/fat/sodium, etc."
Standard advice is 50% carbohydrate, 35% fat, 15% protein. This is not totally crucial on a 2-week hike. The densest foods are heavy in fat. If you have too much fat and not enough carbs, your body can't metabolize the fat calories completely, and you'll be left with harmful waste products.
With hindsight, I wish I had oriented my own thinking a little less toward pack weight and nutrition and a little more toward enjoying the hike. Remember, you're doing this for fun. If you spend the last 5 days hating your diet and wishing you could be eating pizza, then you aren't having fun!
It's not really possible to calculate your calories exactly, because it depends completely on how many days you're going to take, and you really don't know that. Too much food is not the end of the world -- you'll just have a little extra weight to carry. Too little food is not the end of the world -- you'll just lose a little body weight. None of this is crucial on a 2-week hike. If you realize by the time you hit VVR that you're a little low on the calories, just take a zero day at VVR and gorge yourself on pancakes, sweet potatoes, pork chops, and beer.