Object model changes to support 64bit.

Modify mirror objects so that references between them use an ObjectReference
value type rather than an Object* so that functionality to compress larger
references can be captured in the ObjectRefererence implementation.
ObjectReferences are 32bit and all other aspects of object layout remain as
they are currently.

Expand fields in objects holding pointers so they can hold 64bit pointers. Its
expected the size of these will come down by improving where we hold compiler
meta-data.
Stub out x86_64 architecture specific runtime implementation.
Modify OutputStream so that reads and writes are of unsigned quantities.
Make the use of portable or quick code more explicit.
Templatize AtomicInteger to support more than just int32_t as a type.
Add missing, and fix issues relating to, missing annotalysis information on the
mutator lock.
Refactor and share implementations for array copy between System and uses
elsewhere in the runtime.
Fix numerous 64bit build issues.

Change-Id: I1a5694c251a42c9eff71084dfdd4b51fff716822
diff --git a/runtime/gc/space/rosalloc_space.h b/runtime/gc/space/rosalloc_space.h
index 555eb3c..4cd5a6d 100644
--- a/runtime/gc/space/rosalloc_space.h
+++ b/runtime/gc/space/rosalloc_space.h
@@ -47,13 +47,15 @@
   virtual mirror::Object* AllocWithGrowth(Thread* self, size_t num_bytes,
                                           size_t* bytes_allocated) LOCKS_EXCLUDED(lock_);
   virtual mirror::Object* Alloc(Thread* self, size_t num_bytes, size_t* bytes_allocated);
-  virtual size_t AllocationSize(const mirror::Object* obj);
-  virtual size_t Free(Thread* self, mirror::Object* ptr);
-  virtual size_t FreeList(Thread* self, size_t num_ptrs, mirror::Object** ptrs);
+  virtual size_t AllocationSize(mirror::Object* obj);
+  virtual size_t Free(Thread* self, mirror::Object* ptr)
+      SHARED_LOCKS_REQUIRED(Locks::mutator_lock_);
+  virtual size_t FreeList(Thread* self, size_t num_ptrs, mirror::Object** ptrs)
+      SHARED_LOCKS_REQUIRED(Locks::mutator_lock_);
 
   mirror::Object* AllocNonvirtual(Thread* self, size_t num_bytes, size_t* bytes_allocated);
 
-  size_t AllocationSizeNonvirtual(const mirror::Object* obj)
+  size_t AllocationSizeNonvirtual(mirror::Object* obj)
       NO_THREAD_SAFETY_ANALYSIS {
     // TODO: NO_THREAD_SAFETY_ANALYSIS because SizeOf() requires that mutator_lock is held.
     void* obj_ptr = const_cast<void*>(reinterpret_cast<const void*>(obj));