switched from fitpc/atom to prime/linux

Also removed a few old things that had nothing reasonable to be changed
to.
diff --git a/frc971/input/JoystickReader.cc b/frc971/input/JoystickReader.cc
index b29e17d..8f65cdd 100644
--- a/frc971/input/JoystickReader.cc
+++ b/frc971/input/JoystickReader.cc
@@ -3,8 +3,8 @@
 #include <unistd.h>
 #include <math.h>
 
-#include "aos/atom_code/init.h"
-#include "aos/atom_code/input/joystick_input.h"
+#include "aos/linux_code/init.h"
+#include "aos/prime/input/joystick_input.h"
 #include "aos/common/logging/logging.h"
 
 #include "frc971/control_loops/drivetrain/drivetrain.q.h"
diff --git a/frc971/input/input.gyp b/frc971/input/input.gyp
index d26f851..33bf3c4 100644
--- a/frc971/input/input.gyp
+++ b/frc971/input/input.gyp
@@ -7,8 +7,8 @@
         'JoystickReader.cc',
       ],
       'dependencies': [
-        '<(AOS)/atom_code/input/input.gyp:joystick_input',
-        '<(AOS)/atom_code/atom_code.gyp:init',
+        '<(AOS)/prime/input/input.gyp:joystick_input',
+        '<(AOS)/linux_code/linux_code.gyp:init',
         '<(AOS)/build/aos.gyp:logging',
 
         '<(DEPTH)/frc971/control_loops/drivetrain/drivetrain.gyp:drivetrain_loop',
@@ -34,7 +34,7 @@
         '<(DEPTH)/frc971/control_loops/wrist/wrist.gyp:wrist_loop',
         '<(DEPTH)/frc971/control_loops/index/index.gyp:index_loop',
         '<(DEPTH)/frc971/control_loops/shooter/shooter.gyp:shooter_loop',
-        '<(AOS)/atom_code/atom_code.gyp:init',
+        '<(AOS)/linux_code/linux_code.gyp:init',
         '<(AOS)/build/aos.gyp:logging',
         '<(AOS)/common/util/util.gyp:wrapping_counter',
         '<(DEPTH)/frc971/frc971.gyp:constants',
diff --git a/frc971/input/sensor_receiver.cc b/frc971/input/sensor_receiver.cc
index 6fdd2e6..2f5c450 100644
--- a/frc971/input/sensor_receiver.cc
+++ b/frc971/input/sensor_receiver.cc
@@ -1,6 +1,6 @@
 #include <inttypes.h>
 
-#include "aos/atom_code/init.h"
+#include "aos/linux_code/init.h"
 #include "aos/common/logging/logging.h"
 #include "aos/common/util/wrapping_counter.h"
 #include "aos/common/time.h"