mem: Move ruby protocols into a directory called ruby_protocol.

Now that the gem5 protocols are split out, it would be nice to put them
in their own protocol directory. It's also confusing to have files
called *_protocol which are not in the protocol directory.

Change-Id: I7475ee111630050a2421816dfd290921baab9f71
Reviewed-on: https://gem5-review.googlesource.com/c/public/gem5/+/20230
Reviewed-by: Gabe Black <gabeblack@google.com>
Reviewed-by: Andreas Sandberg <andreas.sandberg@arm.com>
Reviewed-by: Jason Lowe-Power <jason@lowepower.com>
Maintainer: Gabe Black <gabeblack@google.com>
Tested-by: kokoro <noreply+kokoro@google.com>

mem: Minimize the use of MemObject.

MemObject doesn't provide anything beyond its base ClockedObject any
more, so this change removes it from most inheritance hierarchies.
Occasionally MemObject is replaced with SimObject when I was fairly
confident that the extra functionality of ClockedObject wasn't needed.

Change-Id: Ic014ab61e56402e62548e8c831eb16e26523fdce
Reviewed-on: https://gem5-review.googlesource.com/c/public/gem5/+/18289
Tested-by: kokoro <noreply+kokoro@google.com>
Reviewed-by: Anthony Gutierrez <anthony.gutierrez@amd.com>
Maintainer: Gabe Black <gabeblack@google.com>

misc: missing override specifier

Missing specifier of overridden virtual function
declared in sim_object.hh

Removed redundant "virtual" keyword

Change-Id: I42aa3349b537c9e62607bce20cf1b3aabdb99bf2
Reviewed-on: https://gem5-review.googlesource.com/c/public/gem5/+/17468
Reviewed-by: Jason Lowe-Power <jason@lowepower.com>
Reviewed-by: Gabe Black <gabeblack@google.com>
Maintainer: Gabe Black <gabeblack@google.com>

arch, cpu, dev, gpu, mem, sim, python: start using getPort.

Replace the getMasterPort, getSlavePort, and getEthPort functions
with getPort, and remove extraneous mechanisms that are no longer
necessary.

Change-Id: Iab7e3c02d2f3a0cf33e7e824e18c28646b5bc318
Reviewed-on: https://gem5-review.googlesource.com/c/public/gem5/+/17040
Reviewed-by: Daniel Carvalho <odanrc@yahoo.com.br>
Reviewed-by: Andreas Sandberg <andreas.sandberg@arm.com>
Maintainer: Andreas Sandberg <andreas.sandberg@arm.com>

python: Don't assume SimObjects live in the global namespace

The importer in Python 3 doesn't like the way we import SimObjects
from the global namespace. Convert the existing SimObject declarations
to import from m5.objects. As a side-effect, this makes these files
consistent with configuration files.

Change-Id: I11153502b430822130722839e1fa767b82a027aa
Signed-off-by: Andreas Sandberg <andreas.sandberg@arm.com>
Reviewed-on: https://gem5-review.googlesource.com/c/15981
Reviewed-by: Jason Lowe-Power <jason@lowepower.com>
Reviewed-by: Giacomo Travaglini <giacomo.travaglini@arm.com>

misc: Using smart pointers for memory Requests

This patch is changing the underlying type for RequestPtr from Request*
to shared_ptr<Request>. Having memory requests being managed by smart
pointers will simplify the code; it will also prevent memory leakage and
dangling pointers.

Change-Id: I7749af38a11ac8eb4d53d8df1252951e0890fde3
Signed-off-by: Giacomo Travaglini <giacomo.travaglini@arm.com>
Reviewed-by: Andreas Sandberg <andreas.sandberg@arm.com>
Reviewed-on: https://gem5-review.googlesource.com/10996
Reviewed-by: Nikos Nikoleris <nikos.nikoleris@arm.com>
Maintainer: Nikos Nikoleris <nikos.nikoleris@arm.com>

misc: Substitute pointer to Request with aliased RequestPtr

Every usage of Request* in the code has been replaced with the
RequestPtr alias. This is a preparing patch for when RequestPtr will be
the typdefed to a smart pointer to Request rather then a raw pointer to
Request.

Change-Id: I73cbaf2d96ea9313a590cdc731a25662950cd51a
Signed-off-by: Giacomo Travaglini <giacomo.travaglini@arm.com>
Reviewed-by: Nikos Nikoleris <nikos.nikoleris@arm.com>
Reviewed-on: https://gem5-review.googlesource.com/10995
Reviewed-by: Anthony Gutierrez <anthony.gutierrez@amd.com>
Reviewed-by: Daniel Carvalho <odanrc@yahoo.com.br>
Maintainer: Anthony Gutierrez <anthony.gutierrez@amd.com>

sim,cpu,mem,arch: Introduced MasterInfo data structure

With this patch a gem5 System will store more info about its Masters.
While it was previously keeping track of the Master name and Master ID
only, it is now adding a per-Master pointer to the SimObject related to
the Master.
This will make it possible for a client to query a System for a Master
using either the master's name or the master's pointer.

Change-Id: I8b97d328a65cd06f329e2cdd3679451c17d2b8f6
Signed-off-by: Giacomo Travaglini <giacomo.travaglini@arm.com>
Reviewed-by: Andreas Sandberg <andreas.sandberg@arm.com>
Reviewed-on: https://gem5-review.googlesource.com/9781
Reviewed-by: Jason Lowe-Power <jason@lowepower.com>
Maintainer: Nikos Nikoleris <nikos.nikoleris@arm.com>

ruby: Make sure addresses print in hex

Added fix in the invalid transition panic and various places in ruby
random tester.

Change-Id: I879264da58369faf7de49d1a28b2da1cb935ef0a
Signed-off-by: Jason Lowe-Power <jason@lowepower.com>
Reviewed-on: https://gem5-review.googlesource.com/8941
Reviewed-by: Nikos Nikoleris <nikos.nikoleris@arm.com>

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>

testers: Refactor some Event subclasses to lambdas

Change-Id: I897b6162a827216b7bad74d955c0e50e06a5a3ec
Signed-off-by: Sean Wilson <spwilson2@wisc.edu>
Reviewed-on: https://gem5-review.googlesource.com/3926
Maintainer: Jason Lowe-Power <jason@lowepower.com>
Reviewed-by: Jason Lowe-Power <jason@lowepower.com>

style: [patch 3/22] reduce include dependencies in some headers

Used cppclean to help identify useless includes and removed them. This
involved erroneously included headers, but also cases where forward
declarations could have been used rather than a full include.

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

mem: Remove threadId from memory request class

In general, the ThreadID parameter is unnecessary in the memory system
as the ContextID is what is used for the purposes of locks/wakeups.
Since we allocate sequential ContextIDs for each thread on MT-enabled
CPUs, ThreadID is unnecessary as the CPUs can identify the requesting
thread through sideband info (SenderState / LSQ entries) or ContextID
offset from the base ContextID for a cpu.

This is a re-spin of 20264eb after the revert (bd1c6789) and includes
some fixes of that commit.

Revert power patch sets with unexpected interactions

The following patches had unexpected interactions with the current
upstream code and have been reverted for now:

e07fd01651f3: power: Add support for power models
831c7f2f9e39: power: Low-power idle power state for idle CPUs
4f749e00b667: power: Add power states to ClockedObject

Signed-off-by: Andreas Sandberg <andreas.sandberg@arm.com>

mem: Remove threadId from memory request class

In general, the ThreadID parameter is unnecessary in the memory system
as the ContextID is what is used for the purposes of locks/wakeups.
Since we allocate sequential ContextIDs for each thread on MT-enabled
CPUs, ThreadID is unnecessary as the CPUs can identify the requesting
thread through sideband info (SenderState / LSQ entries) or ContextID
offset from the base ContextID for a cpu.

ruby: more flexible ruby tester support

This patch allows the ruby random tester to use ruby ports that may only
support instr or data requests. This patch is similar to a previous changeset
(8932:1b2c17565ac8) that was unfortunately broken by subsequent changesets.
This current patch implements the support in a more straight-forward way.
Since retries are now tested when running the ruby random tester, this patch
splits up the retry and drain check behavior so that RubyPort children, such
as the GPUCoalescer, can perform those operations correctly without having to
duplicate code. Finally, the patch also includes better DPRINTFs for
debugging the tester.

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.

ruby: eliminate type uint64 and int64
These types are being replaced with uint64_t and int64_t.

ruby: reverts to changeset: bf82f1f7b040

ruby: eliminate type uint64 and int64

These types are being replaced with uint64_t and int64_t.

ruby: replace Address by Addr
This patch eliminates the type Address defined by the ruby memory system.
This memory system would now use the type Addr that is in use by the
rest of the system.

ruby: drop some redundant includes

ruby: replace global g_abs_controls with per-RubySystem var

This is another step in the process of removing global variables
from Ruby to enable multiple RubySystem instances in a single simulation.

The list of abstract controllers is per-RubySystem and should be
represented that way, rather than as a global.

Since this is the last remaining Ruby global variable, the
src/mem/ruby/Common/Global.* files are also removed.

mem: Split port retry for all different packet classes

This patch fixes a long-standing isue with the port flow
control. Before this patch the retry mechanism was shared between all
different packet classes. As a result, a snoop response could get
stuck behind a request waiting for a retry, even if the send/recv
functions were split. This caused message-dependent deadlocks in
stress-test scenarios.

The patch splits the retry into one per packet (message) class. Thus,
sendTimingReq has a corresponding recvReqRetry, sendTimingResp has
recvRespRetry etc. Most of the changes to the code involve simply
clarifying what type of request a specific object was accepting.

The biggest change in functionality is in the cache downstream packet
queue, facing the memory. This queue was shared by requests and snoop
responses, and it is now split into two queues, each with their own
flow control, but the same physical MasterPort. These changes fixes
the previously seen deadlocks.

mem: Assume all dynamic packet data is array allocated

This patch simplifies how we deal with dynamically allocated data in
the packet, always assuming that it is array allocated, and hence
should be array deallocated (delete[] as opposed to delete). The only
uses of dataDynamic was in the Ruby testers.

The ARRAY_DATA flag in the packet is removed accordingly. No
defragmentation of the flags is done at this point, leaving a gap in
the bit masks.

As the last part the patch, it renames dataDynamicArray to dataDynamic.

mem: Add const getters for write packet data

This patch takes a first step in tightening up how we use the data
pointer in write packets. A const getter is added for the pointer
itself (getConstPtr), and a number of member functions are also made
const accordingly. In a range of places throughout the memory system
the new member is used.

The patch also removes the unused isReadWrite function.

mem: Remove null-check bypassing in Packet::getPtr

This patch removes the parameter that enables bypassing the null check
in the Packet::getPtr method. A number of call sites assume the value
to be non-null.

The one odd case is the RubyTester, which issues zero-sized
prefetches(!), and despite being reads they had no valid data
pointer. This is now fixed, but the size oddity remains (unless anyone
object or has any good suggestions).

Finally, in the Ruby Sequencer, appropriate checks are made for flush
packets as they have no valid data pointer.

misc: Fix a bunch of minor issues identified by static analysis

Add some missing initialisation, and fix a handful benign resource
leaks (including some false positives).

base: Use the global Mersenne twister throughout

This patch tidies up random number generation to ensure that it is
done consistently throughout the code base. In essence this involves a
clean-up of Ruby, and some code simplifications in the traffic
generator.

As part of this patch a bunch of skewed distributions (off-by-one etc)
have been fixed.

Note that a single global random number generator is used, and that
the object instantiation order will impact the behaviour (the sequence
of numbers will be unaffected, but if module A calles random before
module B then they would obviously see a different outcome). The
dependency on the instantiation order is true in any case due to the
execution-model of gem5, so we leave it as is. Also note that the
global ranom generator is not thread safe at this point.

Regressions using the memtest, TrafficGen or any Ruby tester are
affected and will be updated accordingly.

ruby: eliminate type Time
There is another type Time in src/base class which results in a conflict.

mem: Add predecessor to SenderState base class

This patch adds a predecessor field to the SenderState base class to
make the process of linking them up more uniform, and enable a
traversal of the stack without knowing the specific type of the
subclasses.

There are a number of simplifications done as part of changing the
SenderState, particularly in the RubyTest.

ruby: remove calls to g_system_ptr->getTime()
This patch further removes calls to g_system_ptr->getTime() where ever other
clocked objects are available for providing current time.

sim: Include object header files in SWIG interfaces

When casting objects in the generated SWIG interfaces, SWIG uses
classical C-style casts ( (Foo *)bar; ). In some cases, this can
degenerate into the equivalent of a reinterpret_cast (mainly if only a
forward declaration of the type is available). This usually works for
most compilers, but it is known to break if multiple inheritance is
used anywhere in the object hierarchy.

This patch introduces the cxx_header attribute to Python SimObject
definitions, which should be used to specify a header to include in
the SWIG interface. The header should include the declaration of the
wrapped object. We currently don't enforce header the use of the
header attribute, but a warning will be generated for objects that do
not use it.

Port: Add protocol-agnostic ports in the port hierarchy

This patch adds an additional level of ports in the inheritance
hierarchy, separating out the protocol-specific and protocl-agnostic
parts. All the functionality related to the binding of ports is now
confined to use BaseMaster/BaseSlavePorts, and all the
protocol-specific parts stay in the Master/SlavePort. In the future it
will be possible to add other protocol-specific implementations.

The functions used in the binding of ports, i.e. getMaster/SlavePort
now use the base classes, and the index parameter is updated to use
the PortID typedef with the symbolic InvalidPortID as the default.

Ruby: Use uint8_t instead of uint8 everywhere

Ruby: Remove RubyEventQueue
This patch removes RubyEventQueue. Consumer objects now rely on RubySystem
or themselves for scheduling events.

ruby: remove the cpu assumptions for the random tester

Packet: Unify the use of PortID in packet and port

This patch removes the Packet::NodeID typedef and unifies it with the
Port::PortId. The src and dest fields in the packet are used to hold a
port id (e.g. in the bus), and thus the two should actually be the
same.

The typedef PortID is now global (in base/types.hh) and aligned with
the ThreadID in terms of capitalisation and naming of the
InvalidPortID constant.

Before this patch, two flags were used for valid destination and
source, rather than relying on a named value (InvalidPortID), and
this is now redundant, as the src and dest field themselves are
sufficient to tell whether the current value is a valid port
identifier or not. Consequently, the VALID_SRC and VALID_DST are
removed.

As part of the cleaning up, a number of int parameters and local
variables are updated to use PortID.

Note that Ruby still has its own NodeID typedef. Furthermore, the
MemObject getMaster/SlavePort still has an int idx parameter with a
default value of -1 which should eventually change to PortID idx =
InvalidPortID.

MEM: Separate requests and responses for timing accesses

This patch moves send/recvTiming and send/recvTimingSnoop from the
Port base class to the MasterPort and SlavePort, and also splits them
into separate member functions for requests and responses:
send/recvTimingReq, send/recvTimingResp, and send/recvTimingSnoopReq,
send/recvTimingSnoopResp. A master port sends requests and receives
responses, and also receives snoop requests and sends snoop
responses. A slave port has the reciprocal behaviour as it receives
requests and sends responses, and sends snoop requests and receives
snoop responses.

For all MemObjects that have only master ports or slave ports (but not
both), e.g. a CPU, or a PIO device, this patch merely adds more
clarity to what kind of access is taking place. For example, a CPU
port used to call sendTiming, and will now call
sendTimingReq. Similarly, a response previously came back through
recvTiming, which is now recvTimingResp. For the modules that have
both master and slave ports, e.g. the bus, the behaviour was
previously relying on branches based on pkt->isRequest(), and this is
now replaced with a direct call to the apprioriate member function
depending on the type of access. Please note that send/recvRetry is
still shared by all the timing accessors and remains in the Port base
class for now (to maintain the current bus functionality and avoid
changing the statistics of all regressions).

The packet queue is split into a MasterPort and SlavePort version to
facilitate the use of the new timing accessors. All uses of the
PacketQueue are updated accordingly.

With this patch, the type of packet (request or response) is now well
defined for each type of access, and asserts on pkt->isRequest() and
pkt->isResponse() are now moved to the appropriate send member
functions. It is also worth noting that sendTimingSnoopReq no longer
returns a boolean, as the semantics do not alow snoop requests to be
rejected or stalled. All these assumptions are now excplicitly part of
the port interface itself.

MEM: Add the PortId type and a corresponding id field to Port

This patch introduces the PortId type, moves the definition of
INVALID_PORT_ID to the Port class, and also gives every port an id to
reflect the fact that each element in a vector port has an
identifier/index.

Previously the bus and Ruby testers (and potentially other users of
the vector ports) added the id field in their port subclasses, and now
this functionality is always present as it is moved to the base class.

Ruby: Use MasterPort base-class pointers where possible

This patch simplifies future patches by changing the pointer type used
in a number of the Ruby testers to use MasterPort instead of using a
derived CpuPort class. There is no reason for using the more
specialised pointers, and there is no longer a need to do any casting.

With the latest changes to the tester, organising ports as readers and
writes, things got a bit more complicated, and the "type" now had to
be removed to be able to fall back to using MasterPort rather than
CpuPort.

MEM: Remove the Broadcast destination from the packet

This patch simplifies the packet by removing the broadcast flag and
instead more firmly relying on (and enforcing) the semantics of
transactions in the classic memory system, i.e. request packets are
routed from a master to a slave based on the address, and when they
are created they have neither a valid source, nor destination. On
their way to the slave, the request packet is updated with a source
field for all modules that multiplex packets from multiple master
(e.g. a bus). When a request packet is turned into a response packet
(at the final slave), it moves the potentially populated source field
to the destination field, and the response packet is routed through
any multiplexing components back to the master based on the
destination field.

Modules that connect multiplexing components, such as caches and
bridges store any existing source and destination field in the sender
state as a stack (just as before).

The packet constructor is simplified in that there is no longer a need
to pass the Packet::Broadcast as the destination (this was always the
case for the classic memory system). In the case of Ruby, rather than
using the parameter to the constructor we now rely on setDest, as
there is already another three-argument constructor in the packet
class.

In many places where the packet information was printed as part of
DPRINTFs, request packets would be printed with a numeric "dest" that
would always be -1 (Broadcast) and that field is now removed from the
printing.

MEM: Separate snoops and normal memory requests/responses

This patch introduces port access methods that separates snoop
request/responses from normal memory request/responses. The
differentiation is made for functional, atomic and timing accesses and
builds on the introduction of master and slave ports.

Before the introduction of this patch, the packets belonging to the
different phases of the protocol (request -> [forwarded snoop request
-> snoop response]* -> response) all use the same port access
functions, even though the snoop packets flow in the opposite
direction to the normal packet. That is, a coherent master sends
normal request and receives responses, but receives snoop requests and
sends snoop responses (vice versa for the slave). These two distinct
phases now use different access functions, as described below.

Starting with the functional access, a master sends a request to a
slave through sendFunctional, and the request packet is turned into a
response before the call returns. In a system without cache coherence,
this is all that is needed from the functional interface. For the
cache-coherent scenario, a slave also sends snoop requests to coherent
masters through sendFunctionalSnoop, with responses returned within
the same packet pointer. This is currently used by the bus and caches,
and the LSQ of the O3 CPU. The send/recvFunctional and
send/recvFunctionalSnoop are moved from the Port super class to the
appropriate subclass.

Atomic accesses follow the same flow as functional accesses, with
request being sent from master to slave through sendAtomic. In the
case of cache-coherent ports, a slave can send snoop requests to a
master through sendAtomicSnoop. Just as for the functional access
methods, the atomic send and receive member functions are moved to the
appropriate subclasses.

The timing access methods are different from the functional and atomic
in that requests and responses are separated in time and
send/recvTiming are used for both directions. Hence, a master uses
sendTiming to send a request to a slave, and a slave uses sendTiming
to send a response back to a master, at a later point in time. Snoop
requests and responses travel in the opposite direction, similar to
what happens in functional and atomic accesses. With the introduction
of this patch, it is possible to determine the direction of packets in
the bus, and no longer necessary to look for both a master and a slave
port with the requested port id.

In contrast to the normal recvFunctional, recvAtomic and recvTiming
that are pure virtual functions, the recvFunctionalSnoop,
recvAtomicSnoop and recvTimingSnoop have a default implementation that
calls panic. This is to allow non-coherent master and slave ports to
not implement these functions.

rubytest: remove spurious printf

rubytest: seperated read and write ports.

This patch allows the ruby tester to support protocols where the i-cache and d-cache
are managed by seperate controllers.

MEM: Introduce the master/slave port sub-classes in C++

This patch introduces the notion of a master and slave port in the C++
code, thus bringing the previous classification from the Python
classes into the corresponding simulation objects and memory objects.

The patch enables us to classify behaviours into the two bins and add
assumptions and enfore compliance, also simplifying the two
interfaces. As a starting point, isSnooping is confined to a master
port, and getAddrRanges to slave ports. More of these specilisations
are to come in later patches.

The getPort function is not getMasterPort and getSlavePort, and
returns a port reference rather than a pointer as NULL would never be
a valid return value. The default implementation of these two
functions is placed in MemObject, and calls fatal.

The one drawback with this specific patch is that it requires some
code duplication, e.g. QueuedPort becomes QueuedMasterPort and
QueuedSlavePort, and BusPort becomes BusMasterPort and BusSlavePort
(avoiding multiple inheritance). With the later introduction of the
port interfaces, moving the functionality outside the port itself, a
lot of the duplicated code will disappear again.

Ruby: Simplify tester ports by not using SimpleTimingPort

This patch simplfies the master ports used by RubyDirectedTester and
RubyTester by avoiding the use of SimpleTimingPort. Neither tester
made any use of the functionality offered by SimpleTimingPort besides
a trivial implementation of recvFunctional (only snoops) and
recvRangeChange (not relevant since there is only one master).

The patch does not change or add any functionality, it merely makes
the introduction of a master/slave port easier (in a future patch).

MEM: Move port creation to the memory object(s) construction

This patch moves all port creation from the getPort method to be
consistently done in the MemObject's constructor. This is possible
thanks to the Swig interface passing the length of the vector ports.
Previously there was a mix of: 1) creating the ports as members (at
object construction time) and using getPort for the name resolution,
or 2) dynamically creating the ports in the getPort call. This is now
uniform. Furthermore, objects that would not be complete without a
port have these ports as members rather than having pointers to
dynamically allocated ports.

This patch also enables an elaboration-time enumeration of all the
ports in the system which can be used to determine the masterId.

MEM: Introduce the master/slave port roles in the Python classes

This patch classifies all ports in Python as either Master or Slave
and enforces a binding of master to slave. Conceptually, a master (such
as a CPU or DMA port) issues requests, and receives responses, and
conversely, a slave (such as a memory or a PIO device) receives
requests and sends back responses. Currently there is no
differentiation between coherent and non-coherent masters and slaves.

The classification as master/slave also involves splitting the dual
role port of the bus into a master and slave port and updating all the
system assembly scripts to use the appropriate port. Similarly, the
interrupt devices have to have their int_port split into a master and
slave port. The intdev and its children have minimal changes to
facilitate the extra port.

Note that this patch does not enforce any port typing in the C++
world, it merely ensures that the Python objects have a notion of the
port roles and are connected in an appropriate manner. This check is
carried when two ports are connected, e.g. bus.master =
memory.port. The following patches will make use of the
classifications and specialise the C++ ports into masters and slaves.

mem: Add a master ID to each request object.

This change adds a master id to each request object which can be
used identify every device in the system that is capable of issuing a request.
This is part of the way to removing the numCpus+1 stats in the cache and
replacing them with the master ids. This is one of a series of changes
that make way for the stats output to be changed to python.

Ruby: Remove some unused typedefs
This patch removes some of the unused typedefs. It also moves
some of the typedefs from Global.hh to TypeDefines.hh. The patch
also eliminates the file NodeID.hh.

BuildEnv: Eliminate RUBY as build environment variable
This patch replaces RUBY with PROTOCOL in all the SConscript files as
the environment variable that decides whether or not certain components
of the simulator are compiled.

scons: rename TraceFlags to DebugFlags

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

includes: sort all includes