is the president still commander in chief?

i'm wondering if the military is still under control of the politicians, or if they've gone rogue and there's a cover up. i got a sense when obama increased troops in afghanistan, that it might not have been a willing act. now that we've pulled out of iraq, except that we haven't - does the source of the double talk originate from politicians who want to be in the war but also want to get re-elected, or is it from the military-industrial complex that wants to placate the public through their controlled talking heads?

reminds me of rome - beware the visigoths!