Enhance Gulp dependency compilation

Gulp automatically grabs all of the dependencies listed as main files in
`bower.json` except for jQuery and modernizr

Deletes plugin directory, bad development pattern. Doesn't make sense
with the existence of `vendor` directory anyway.

Concat all of the js in the js directory except vendor and compiled
files

bower.json

@@ -17,5 +17,23 @@
     "jquery": "1.11.1",
     "bootstrap": "3.2.0",
     "respond": "1.4.2"
+  },
+  "overrides": {
+    "bootstrap": {
+      "main": [
+        "./js/transition.js",
+        "./js/alert.js",
+        "./js/button.js",
+        "./js/carousel.js",
+        "./js/collapse.js",
+        "./js/dropdown.js",
+        "./js/modal.js",
+        "./js/tooltip.js",
+        "./js/popover.js",
+        "./js/scrollspy.js",
+        "./js/tab.js",
+        "./js/affix.js"
+      ]
+    }
   }
 }