misc: Add explicit overrides and fix other clang >= 3.5 issues

This patch adds explicit overrides as this is now required when using
"-Wall" with clang >= 3.5, the latter now part of the most recent
XCode. The patch consequently removes "virtual" for those methods
where "override" is added. The latter should be enough of an
indication.

As part of this patch, a few minor issues that clang >= 3.5 complains
about are also resolved (unused methods and variables).

misc: Remove redundant compiler-specific defines

This patch moves away from using M5_ATTR_OVERRIDE and the m5::hashmap
(and similar) abstractions, as these are no longer needed with gcc 4.7
and clang 3.1 as minimum compiler versions.

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.

alpha: Move system virtProxy to Alpha only

This patch moves the system virtual port proxy to the Alpha system
only to make the resurrection of the NOISA slightly less
painful. Alpha is the only ISA that is actually using it.

Checkpoint: Make system serialize call children

This patch changes how the serialization of the system works. The base
class had a non-virtual serialize and unserialize, that was hidden by
a function with the same name for a number of subclasses (most likely
not intentional as the base class should have been virtual). A few of
the derived systems had no specialization at all (e.g. Power and x86
that simply called the System::serialize), but MIPS and Alpha adds
additional symbol table entries to the checkpoint.

Instead of overriding the virtual function, the additional entries are
now printed through a virtual function (un)serializeSymtab. The reason
for not calling System::serialize from the two related systems is that
a follow up patch will require the system to also serialize the
PhysicalMemory, and if this is done in the base class if ends up being
between the general parts and the specialized symbol table.

With this patch, the checkpoint is not modified, as the order of the
segments is unchanged.

Alpha System: override startup(), instead of loadState()
Alpha System was overriding loadState() function to setup some functional
event. The system tried to read/write to memory before the Ruby memory had
unserialized the state. With this patch, Alpha System overrides the
startup() function, and sets up functional events in this function. This
works because startup() is called after Ruby memory system has unserialized
the memory state.

System: Move code in initState() back into constructor whenever possible.

The change to port proxies recently moved code out of the constructor into
initState(). This is needed for code that loads data into memory, however
for code that setups symbol tables, kernel based events, etc this is the wrong
thing to do as that code is only called when a checkpoint isn't being restored
from.

Merge with the main repo.

SE/FS: Remove System::platform and Platform::intrFrequency.

In order for a system object to work in SE mode and FS mode, it has to either
always require a platform object even in SE mode, or get rid of the
requirement all together. Making SE mode carry around unnecessary/unused bits
of FS seems less than ideal, so I decided to go with the second option. The
platform pointer in the System class was used for exactly one purpose, a path
for the Alpha Linux system object to get to the real time clock and read its
frequency so that it could short cut the loops_per_jiffy calculation. There
was also a copy and pasted implementation in MIPS, but since it was only there
because it was there in Alpha I still count that as one use.

This change reverses the mechanism that communicates the RTC frequency so that
the Tsunami platform object pushes it up to the AlphaSystem object. This is
slightly less specific than it could be because really only the
AlphaLinuxSystem uses it. Because the intrFrequency function on the Platform
class was no longer necessary (and unimplemented on anything but Alpha) it was
eliminated.

After this change, a platform will need to have a system, but a system won't
have to have a platform.

MEM: Add port proxies instead of non-structural ports

Port proxies are used to replace non-structural ports, and thus enable
all ports in the system to correspond to a structural entity. This has
the advantage of accessing memory through the normal memory subsystem
and thus allowing any constellation of distributed memories, address
maps, etc. Most accesses are done through the "system port" that is
used for loading binaries, debugging etc. For the entities that belong
to the CPU, e.g. threads and thread contexts, they wrap the CPU data
port in a port proxy.

The following replacements are made:
FunctionalPort > PortProxy
TranslatingPort > SETranslatingPortProxy
VirtualPort > FSTranslatingPortProxy

style: Make a style pass over the whole arch/alpha directory.

Major changes to how SimObjects are created and initialized. Almost all
creation and initialization now happens in python. Parameter objects
are generated and initialized by python. The .ini file is now solely for
debugging purposes and is not used in construction of the objects in any
way.

Initial work to make remote gdb available in SE mode. This is completely untested.

fixes for gcc 4.1
Nate needs to fix sinic builder stuff
Gabe needs to verify my fixes to decoder.isa

OPT/DEBUG compiles for ALPHA_FS, ALPHA_SE, MIPS_SE, SPARC_SE with this changeset

README:
Fix the swig version in the readme
src/SConscript:
remove sinic until nate fixes the builder crap for it
src/arch/alpha/system.hh:
src/arch/mips/isa/includes.isa:
src/arch/sparc/isa/decoder.isa:
src/base/stats/visit.cc:
src/base/timebuf.hh:
src/dev/ide_disk.cc:
src/dev/sinic.cc:
src/mem/cache/miss/mshr.cc:
src/mem/cache/miss/mshr_queue.cc:
src/mem/packet.hh:
src/mem/request.hh:
src/sim/builder.hh:
src/sim/system.hh:
fixes for gcc 4.1

Add myself to list of authors

Updated Authors from bk prs info

New directory structure:
- simulator source now in 'src' subdirectory
- imported files from 'ext' repository
- support building in arbitrary places, including
outside of the source tree. See comment at top
of SConstruct file for more details.
Regression tests are temporarily disabled; that
syetem needs more extensive revisions.

SConstruct:
Update for new directory structure.
Modify to support build trees that are not subdirectories
of the source tree. See comment at top of file for
more details.
Regression tests are temporarily disabled.
src/arch/SConscript:
src/arch/isa_parser.py:
src/python/SConscript:
Update for new directory structure.