misc: Rename misc.(hh|cc) to logging.(hh|cc)

These files aren't a collection of miscellaneous stuff, they're the
definition of the Logger interface, and a few utility macros for
calling into that interface (panic, warn, etc.).

Change-Id: I84267ac3f45896a83c0ef027f8f19c5e9a5667d1
Reviewed-on: https://gem5-review.googlesource.com/6226
Reviewed-by: Brandon Potter <Brandon.Potter@amd.com>
Maintainer: Gabe Black <gabeblack@google.com>

style: [patch 1/22] use /r/3648/ to reorganize includes

style: fix missing spaces in control statements

Result of running 'hg m5style --skip-all --fix-control -a'.

sim: Refactor the serialization base class

Objects that are can be serialized are supposed to inherit from the
Serializable class. This class is meant to provide a unified API for
such objects. However, so far it has mainly been used by SimObjects
due to some fundamental design limitations. This changeset redesigns
to the serialization interface to make it more generic and hide the
underlying checkpoint storage. Specifically:

* Add a set of APIs to serialize into a subsection of the current
object. Previously, objects that needed this functionality would
use ad-hoc solutions using nameOut() and section name
generation. In the new world, an object that implements the
interface has the methods serializeSection() and
unserializeSection() that serialize into a named /subsection/ of
the current object. Calling serialize() serializes an object into
the current section.

* Move the name() method from Serializable to SimObject as it is no
longer needed for serialization. The fully qualified section name
is generated by the main serialization code on the fly as objects
serialize sub-objects.

* Add a scoped ScopedCheckpointSection helper class. Some objects
need to serialize data structures, that are not deriving from
Serializable, into subsections. Previously, this was done using
nameOut() and manual section name generation. To simplify this,
this changeset introduces a ScopedCheckpointSection() helper
class. When this class is instantiated, it adds a new /subsection/
and subsequent serialization calls during the lifetime of this
helper class happen inside this section (or a subsection in case
of nested sections).

* The serialize() call is now const which prevents accidental state
manipulation during serialization. Objects that rely on modifying
state can use the serializeOld() call instead. The default
implementation simply calls serialize(). Note: The old-style calls
need to be explicitly called using the
serializeOld()/serializeSectionOld() style APIs. These are used by
default when serializing SimObjects.

* Both the input and output checkpoints now use their own named
types. This hides underlying checkpoint implementation from
objects that need checkpointing and makes it easier to change the
underlying checkpoint storage code.

dev: prevent intel 8254 timer counter events firing before startup

This change includes edits to Intel8254Timer to prevent counter events firing
before startup to comply with SimObject initialization call sequence.

Committed by: Nilay Vaish <nilay@cs.wisc.edu>

trace: reimplement the DTRACE function so it doesn't use a vector
At the same time, rename the trace flags to debug flags since they
have broader usage than simply tracing. This means that
--trace-flags is now --debug-flags and --trace-help is now --debug-help

x86: Add checkpointing capability to devices

Add checkpointing capability to the Intel 8254 timer, CMOS, I8042,
PS2 Keyboard and Mouse, I82094AA, I8237, I8254, I8259, and speaker
devices

Replace curTick global variable with accessor functions.
This step makes it easy to replace the accessor functions
(which still access a global variable) with ones that access
per-thread curTick values.

devices: undo cset 017baf09599f that added timer drain functions.
It's not the right fix for the checkpoint deadlock problem
Brad was having, and creates another bug where the system can
deadlock on restore. Brad can't reproduce the original bug
right now, so we'll wait until it arises again and then try
to fix it the right way then.

devices: Fixed periodic interrupts to work with draining

Added drain functions to the RTC and 8254 timer so that periodic interrupts
stop when the system is draining. This patch is needed to checkpoint in
timing mode. Otherwise under certain situations, the event queue will never
be completely empty.

tick: rename Clock namespace to SimClock

X86: Keep track of what the initial count value was in the LAPIC timer.

X86: Set up a mechanism for the I8254 timer to cause interrupts.

Devices: Make the Intel8254Timer device only use pointers to its counters.

eventq: convert all usage of events to use the new API.
For now, there is still a single global event queue, but this is
necessary for making the steps towards a parallelized m5.

Timer: Fill out the periodic modes a little.

Dev: Seperate the 8254 timer from tsunami and use it in that and the PC.