Add permissions and standardize methods.

I cannot stand these uppercased method checks anymore, back to the
standards we go.

Also, add a giant list of permissions in OperatorHandler.java for
setPermissionStates() to use in a for loop. I need to add the mod
functions, still, however. I might eventually expand the setPS method
to support all sets of permissions (TRUE, FALSE, OP, and NOTOP), but
for now this is it.