What OS threads get used in Erlang’s abstract machine, BEAM? - multithreading

I’ve begun studying Erlang and find the BEAM runtime environment fascinating. It’s commonly stated that in Erlang, processes belong to the language rather than the OS (meaning the runtime, meaning BEAM in this case). These are the lightweight, “green processes” that Erlang is getting famous for. It’s further stated (on page 5 of this paper) that BEAM uses one (1) OS thread per CPU core for scheduling and another OS thread for i/o. So I wonder: From what thread do the CPU cycles needed to actually execute the Erlang code come from?
Further, if I’m running on a dual core machine I would expect -- based on what I’ve read so far -- to see three (3) threads running under the BEAM process: two schedulers (one for each core) and one i/o thread. But I see 10. Sometimes 11. Sometimes it starts at 13 and, like high-quality amplifiers, goes to 11.
I’m confused. Any insight will be appreciated.

Following #user425720's advice, I asked my question on the erlang-questions LISTSERV. It's also available as a Google Group. Kresten Krab Thorup of Trifork answered me almost at once. My thanks to go out to Kreston. Here is his answer. (Parentheticals and emphasis are mine.)
Here is AFAIK, the basic scenario:
Erlang code will be run in as many
"green threads" as there are
processes; the process limit is
controlled by the +P (command line) flag.
The green threads are mapped on to S
threads, where S is the number of
cores/CPUs. The fact that these
threads are also called schedulers
can seem somewhat
confusing, but from the VMs point of
view they are. From the developer's
point of view, they are the threads
that run your erlang code. The
number S can be controlled with
the +S option to the erl command line.
In addition hereto, there are a number
of so-called "Async Threads". That's
a thread pool which is used by I/O
processes called linked in drivers, to
react to select / poll etc. The
number of asynch threads is dynamic,
but limited by the +A flag.
So, the 11 threads you see on a
dual-core may be 2 schedulers, and 9
async threads. For instance.
Read more about the flags here.

Erlang processes are not 'green' as threads are green in java. Erlang processes are structures, which do not share memory and they are maintained by Erlang VM.
It may sound strange but this paper could be 'old' (even though bio from 2007). It all changed around R13 release when we got brand new handling of run time queues (with dynamic balancing stuff and other goodies). Here is some presentation by Ulf Wiger about it http://ulf.wiger.net/weblog/2009/01/23/erlang-programming-for-multicore/
To sum up, processes are completely transparent and you may adjust number of run time queues and schedulers, but OS realization is not intact. I do not want to speculate why there are like 11 of threads..
EDIT: I am wrong about OS a bit:
+S Schedulers:SchedulerOnline
Sets the amount of scheduler threads to create and scheduler threads to set online when SMP support has been enabled.
Valid range for both values are 1-1024. If the Erlang runtime system is able to determine the amount of logical processors configured and logical processors available, Schedulers will default to logical processors configured, and SchedulersOnline will default to logical processors available; otherwise, the default values will be 1. Schedulers may be omitted if :SchedulerOnline is not and vice versa. The amount of schedulers online can be changed at run time via erlang:system_flag(schedulers_online, SchedulersOnline).
...
This flag will be ignored if the emulator doesn't have SMP support enabled (see the -smp flag).
from here: http://www.erlang.org/doc/man/erl.html
EDIT2: Interesting discussion on erlang-question mailing list on pros and cons of many VMs vs many schedulers. Unfortunately it is also from 2008 and may not be valid with huge improvements in new OTP releases. http://www.erlang.org/cgi-bin/ezmlm-cgi?4:mss:38165:200809:nbihpkepgjcfnffkoobf

Related

Linux thread scheduling differences on multi-core systems?

We have several latency-sensitive "pipeline"-style programs that have a measurable performance degredation when run on one Linux kernel versus another. In particular, we see better performance with the 2.6.9 CentOS 4.x (RHEL4) kernel, and worse performance with the 2.6.18 kernel from CentOS 5.x (RHEL5).
By "pipeline" program, I mean one that has multiple threads. The mutiple threads work on shared data. Between each thread, there is a queue. So thread A gets data, pushes into Qab, thread B pulls from Qab, does some processing, then pushes into Qbc, thread C pulls from Qbc, etc. The initial data is from the network (generated by a 3rd party).
We basically measure the time from when the data is received to when the last thread performs its task. In our application, we see an increase of anywhere from 20 to 50 microseconds when moving from CentOS 4 to CentOS 5.
I have used a few methods of profiling our application, and determined that the added latency on CentOS 5 comes from queue operations (in particular, popping).
However, I can improve performance on CentOS 5 (to be the same as CentOS 4) by using taskset to bind the program to a subset of the available cores.
So it appers to me, between CentOS 4 and 5, there was some change (presumably to the kernel) that caused threads to be scheduled differently (and this difference is suboptimal for our application).
While I can "solve" this problem with taskset (or in code via sched_setaffinity()), my preference is to not have to do this. I'm hoping there's some kind of kernel tunable (or maybe collection of tunables) whose default was changed between versions.
Anyone have any experience with this? Perhaps some more areas to investigate?
Update: In this particular case, the issue was resolved by a BIOS update from the server vendor (Dell). I pulled my hair out quite a while on this one. Until I went back to the basics, and checked my vendor's BIOS updates. Suspiciously, one of the updates said something like "improve performance in maximum performance mode". Once I upgraded the BIOS, CentOS 5 was faster---generally speaking, but particularly in my queue tests, and actual production runs.
Hmm.. if the time taken for a pop() operation from a producer-consumer queue is making a significant difference to the overall performance of your app, I would suggest that the structure of your threads/workFlow is not optimal, somewhere . Unless there is a huge amount of contention on the queues, I would be surprised if any P-C queue push/pop on any modern OS would take more than a µS or so, even if the queue uses kernel locks in a classic 'Computer Science 117 - how to make a bounded P-C queue with three semaphores' manner.
Can you just absorb the functionality of the thread/s that do the least work into those that do the most, so reducing the number of push/pop per overall work item that flows through your system?
The Linux scheduler has been an intense area of change and contention over the years. You might want to try a very recent kernel and give that a go. Yes, you may have to compile it yourself—it will be good for you. You might also (when you have newer kernel) want to consider putting the different processes in different containers with everything else in an additional one and see if that helps.
As far as other random things to try, you can raise the priority of your various processes, add real time semantics (caution, a buggy program with realtime privs can starve the rest of the system).

Technically, why are processes in Erlang more efficient than OS threads?

Erlang's Characteristics
From Erlang Programming (2009):
Erlang concurrency is fast and scalable. Its processes are lightweight in that the Erlang virtual machine does not create an OS thread for every created process. They are created, scheduled, and handled in the VM, independent of underlying operating system. As a result, process creation time is of the order of microseconds and independent of the number of concurrently existing processes. Compare this with Java and C#, where for every process an underlying OS thread is created: you will get some very competitive comparisons, with Erlang greatly outperforming both languages.
From Concurrency oriented programming in Erlang (pdf) (slides) (2003):
We observe that the time taken to create an Erlang process is constant 1µs up to 2,500 processes; thereafter it increases to about 3µs for up to 30,000 processes. The performance of Java and C# is shown at the top of the figure. For a small number of processes it takes about 300µs to create a process. Creating more than two thousand processes is impossible.
We see that for up to 30,000 processes the time to send a message between two Erlang processes is about 0.8µs. For C# it takes about 50µs per message, up to the maximum number of processes (which was about 1800 processes). Java was even worse, for up to 100 process it took about 50µs per message thereafter it increased rapidly to 10ms per message when there were about 1000 Java processes.
My thoughts
I don't fully understand technically why Erlang processes are so much more efficient in spawning new processes and have much smaller memory footprints per process. Both the OS and Erlang VM have to do scheduling, context switches, and keep track of the values in the registers and so on...
Simply why aren't OS threads implemented in the same way as processes in Erlang? Do they have to support something more? And why do they need a bigger memory footprint? And why do they have slower spawning and communication?
Technically, why are processes in Erlang more efficient than OS threads when it comes to spawning and communication? And why can't threads in the OS be implemented and managed in the same efficient way? And why do OS threads have a bigger memory footprint, plus slower spawning and communication?
More reading
Inside the Erlang VM with focus on SMP (2008)
Concurrency in Java and in Erlang (pdf) (2004)
Performance Measurements of Threads in Java and Processes in Erlang (1998)
There are several contributing factors:
Erlang processes are not OS processes. They are implemented by the Erlang VM using a lightweight cooperative threading model (preemptive at the Erlang level, but under the control of a cooperatively scheduled runtime). This means that it is much cheaper to switch context, because they only switch at known, controlled points and therefore don't have to save the entire CPU state (normal, SSE and FPU registers, address space mapping, etc.).
Erlang processes use dynamically allocated stacks, which start very small and grow as necessary. This permits the spawning of many thousands — even millions — of Erlang processes without sucking up all available RAM.
Erlang used to be single-threaded, meaning that there was no requirement to ensure thread-safety between processes. It now supports SMP, but the interaction between Erlang processes on the same scheduler/core is still very lightweight (there are separate run queues per core).
After some more research I found a presentation by Joe Armstrong.
From Erlang - software for a concurrent world (presentation) (at 13 min):
[Erlang] is a concurrent language – by that I mean that threads are part of the programming language, they do not belong to the operating system. That's really what's wrong with programming languages like Java and C++. It's threads aren't in the programming language, threads are something in the operating system – and they inherit all the problems that they have in the operating system. One of the problems is granularity of the memory management system. The memory management in the operating system protects whole pages of memory, so the smallest size that a thread can be is the smallest size of a page. That's actually too big.
If you add more memory to your machine – you have the same number of bits that protects the memory so the granularity of the page tables goes up – you end up using say 64kB for a process you know running in a few hundred bytes.
I think it answers if not all, at least a few of my questions
I've implemented coroutines in assembler, and measured performance.
Switching between coroutines, a.k.a. Erlang processes, takes about 16 instructions and 20 nanoseconds on a modern processor. Also, you often know the process you are switching to (example: a process receiving a message in its queue can be implemented as straight hand-off from the calling process to the receiving process) so the scheduler doesn't come into play, making it an O(1) operation.
To switch OS threads, it takes about 500-1000 nanoseconds, because you're calling down to the kernel. The OS thread scheduler might run in O(log(n)) or O(log(log(n))) time, which will start to be noticeable if you have tens of thousands, or even millions of threads.
Therefore, Erlang processes are faster and scale better because both the fundamental operation of switching is faster, and the scheduler runs less often.
Erlang processes correspond (approximately) to green threads in other languages; there's no OS-enforced separation between the processes. (There may well be language-enforced separation, but that's a lesser protection despite Erlang doing a better job than most.) Because they're so much lighter-weight, they can be used far more extensively.
OS threads on the other hand are able to be simply scheduled on different CPU cores, and are (mostly) able to support independent CPU-bound processing. OS processes are like OS threads, but with much stronger OS-enforced separation. The price of these capabilities is that OS threads and (even more so) processes are more expensive.
Another way to understand the difference is this. Supposing you were going to write an implementation of Erlang on top of the JVM (not a particularly crazy suggestion) then you'd make each Erlang process be an object with some state. You'd then have a pool of Thread instances (typically sized according to the number of cores in your host system; that's a tunable parameter in real Erlang runtimes BTW) which run the Erlang processes. In turn, that will distribute the work that is to be done across the real system resources available. It's a pretty neat way of doing things, but relies utterly on the fact that each individual Erlang process doesn't do very much. That's OK of course; Erlang is structured to not require those individual processes to be heavyweight since it is the overall ensemble of them which execute the program.
In many ways, the real problem is one of terminology. The things that Erlang calls processes (and which correspond strongly to the same concept in CSP, CCS, and particularly the π-calculus) are simply not the same as the things that languages with a C heritage (including C++, Java, C#, and many others) call a process or a thread. There are some similarities (all involve some notion of concurrent execution) but there's definitely no equivalence. So be careful when someone says “process” to you; they might understand it to mean something utterly different…
I think Jonas wanted some numbers on comparing OS threads to Erlang processes. The author of Programming Erlang, Joe Armstrong, a while back tested the scalability of the spawning of Erlang processes to OS threads. He wrote a simple web server in Erlang and tested it against multi-threaded Apache (since Apache uses OS threads). There's an old website with the data dating back to 1998. I've managed only to find that site exactly once. So I can't supply a link. But the information is out there. The main point of the study showed that Apache maxed out just under 8K processes, while his hand written Erlang server handled 10K+ processes.
Because Erlang interpreter has only to worry about itself, the OS has many other things to worry about.
one of the reason is erlang process is created not in the OS, but in the evm(erlang virtual machine), so the cost is smaller.

With modern OS schedulers, does it still make sense to manually lock processes to specific CPUs/cores?

I recently learned that sometimes people will lock specific processes or threads to specific processors or cores, and it's thought that this manual tuning will best distribute the load. This is a bit counter-intuitive to me -- I would think the OS scheduler would be able to make a better decision than a human about how to spread the load. I could see it being true for older operating systems that perhaps weren't aware of issues like their being more latency between specific pairs of cores, or shared cache between one pair of cores but not another pair. But I assume 'modern' OSs like Linux, Solaris 10, OS X, and Vista should have schedulers that know this information. Am I mistaken about their capabilities? Am I mistaken that it's a problem the OS can actually solve? I'm particularly interested in the answer for Solaris and Linux.
The consequence is whether or not I need to inform users of my (multithreaded) software of how they might consider balancing on their box.
First of all, 'Lock' is not a correct term to describe it. 'Affinity' is more suitable term.
In most case, you don't need to care about it. However, in some cases, manually setting CPU/Process/Thread affinity could be beneficial.
Operating systems are usually oblivious to the details of modern multicore architecture. For example, say we have 2-socket quadcore processors, and the processor supports SMT(=HyperThreading). In this case, we have 2 processors, 8 cores, and 16 hardware threads. So, OS will see 16 logical processors. If an OS does not recognize such hierarchy, it is highly likely to lose some performance gains. The reasons are:
Caches: in our example, two different processors (installed on two different sockets) are not sharing any on-chip caches. Say an application has 4 busy-running threads and a lot of data are shared by threads. If an OS schedules the threads across the processors, then we may lose some cache locality, resulting in performance lose. However, the threads are not sharing much data (having distinct working set), then separating to different physical processors would be better by increasing effective cache capacity. Also, more tricky scenario could be happen, which is very hard for OS to be aware of.
Resource conflict: let's consider SMT(=HyperThreading) case. SMT shares a lot of important resources of CPU such as caches, TLB, and execution units. Say there are only two busy threads. However, an OS may stupidly schedule these two threads on two logical processors from the same physical core. In such case, a significant resources are contended by two logical threads.
One good example is Windows 7. Windows 7 now supports a smart scheduling policy that consider SMT (related article). Windows 7 actually prevents the above 2. case. Here is a snapshot of task manger in Windows 7 with 20% load on Core i7 (quadcore with HyperThreading = 8 logical processors):
(source: egloos.com)
The CPU usage history is very interesting, isn't? :) You may see that only a single CPU in pairs is utilized, meaning Windows 7 avoids scheduling two threads on a same core simultaneously as possible. This policy will definitely decrease the negative effects of SMT such as resource conflict.
I'd like to say OS are not very smart to understand modern multicore architecture where a lot of caches, shared last-level cache, SMT, and even NUMA. So, there could be good reasons you may need to manually set CPU/process/thread affinity.
However, I won't say this is really needed. Only when you fully understand your workload patterns and your system architecture, then try it on. And, see the results whether your try is effective.
For general-purpose applications, there is no reason to set the CPU affinity; you should just allow the OS scheduler to choose which CPU should run the process or thread. However, there are instances where it is necessary to set the CPU affinity. For example, in real-time systems where the cost of migrating a thread from one core to another (which can happen at any time if the CPU affinity has not been set) can introduce unpredictable delays that can cause tasks to miss their deadlines and which preclude real-time guarantees.
You can take a look at this article about a multi-core aware implementation of real-time CORBA that, among other things, had to set the CPU affinity so that CPU migration could not result in missed deadlines.
The paper is: Real-Time Performance and Middleware for Multiprocessor and Multicore Linux Platforms
For applications designed with parallelism and multiple cores in mind, OS-default thread affinity is sometimes not enough. There are many approaches to parallelism, but so far all require involvement of the programmer and knowledge - at some level at least - of the architecture on which the solution will be mapped. This includes the machines, CPU's and threads that are involved.
This is an actively researched subject, and there is an excellent course on MIT's OpenCourseWare that delves into these issues: http://ocw.mit.edu/OcwWeb/Electrical-Engineering-and-Computer-Science/6-189January--IAP--2007/CourseHome/
Well something many people haven't thought here is the idea of forbidding two processes to run on the same processor (socket). It might be worth to help the system to bound different heavily used processes to different processors. This can avoid contention if the scheduler is not clever enough to figure it out itself.
But this is more a system admin task then one for the programmers. I have seen optimizations like this for a few high performance database servers.
Most modern operating systems will do an effective job of allocating work between cores. They also attempt to keep threads running on the same core, to get the cache benefits you mentioned.
In general, you should never be setting your thread affinity unless you have a very good reason to. You don't have as good an insight as the OS into the other work that threads on the system are doing. Kernels are constantly being updated based on new processor technology (single CPU per socket to hyper threading to multiple cores per sockets). Any attempt by you to set hard affinity may backfire on future platforms.
This article from MSDN Magazine, Using concurrency for scalability, gives a good overview of multithreading on Win32. Regarding CPU affinity,
Windows automatically employs
so-called ideal processor affinity in
an attempt to maximize cache
efficiency. For example, a thread
running on CPU 1 that gets context
switched out will prefer to run again
on CPU 1 in the hope that some of its
data will still reside in cache. But
if CPU 1 is busy and CPU 2 is not, the
thread could be scheduled on CPU 2
instead, with all the negative cache
effects that implies.
The article also warns that CPU affinity shouldn't be manipulated without a deep understanding of the problem. Based on this information, my answer to your question would be No, except for very specific, well-understood scenarios.
I am not even sure you can pin processes to a specific CPU on linux. So, my answer is "NO" - let the OS handle it, it's smarter then you most of the time.
Edit:
It seems that on win32 you have some control over which CPU family are you going to run this process. Now I only wait for someone to prove me wrong also on linux/posix ...

Developing Kernels to support Multiple CPUs

I am looking to get into operating system kernel development and figured my contribution would be to extend the SANOS operating system in order to support multiple core machines. I have been reading books on operating systems (Tannenbaum) as well as studying how BSD and Linux have tackled this challenge but still am stuck on several concepts.
Does SANOS need to have more sophisticated scheduling algorithms when it runs on multiple CPUs or will what is currently in place work fine?
I know that it is a good idea for threads to have affinity to a core that they were started on, but is this handled via scheduling or by changing the implementation of how threads are created?
What would need to be considered such that SANOS could run on a machine with hundreds of cores? From what I can tell, BSD and Linux at best only support a maximum of a dozen of cores.
Your reading material is good. SO no problems there. Also take a peek at the CS downloadable lectures on operating system design from Stanford.
The scheduling algorithm may need to be more sophisticated. This depends on the types of applications running and how greedy they are. Do they yield themselves or are they forced to. That kind of thing. This is more a question of what your processes want, or expect. A RTOS will have more complex scheduling than a desktop.
Threads should have an affinity to one core, because 2 threads in one process can execute in parallel ... but not at the same real-time on the same core. Putting them on different cores allows them to really-run-in-parallel. Also caching can be optimized for core affinity. This is really a mix of your thread implementation and scheduler. The sched may want to ensure threads are started at the same time on cores, rather than ad-hoc to reduce the amount of time threads wait on eachother and things. If your thread library is user-space, maybe it assigns core, or lets the scheduler decide based on capacity or recent deaths.
Scalability is often a kernel limit (which can be arbitrary). In Linux, if I recall, the limits are due to static sizing of arrays that hold CPU information structs in the scheduler. Hence they are a fixed size. This can be changed by recompiling the kernel. Most good scheduling algorithms will support a very large number of cores. As your core or processor count gets higher, you need to be careful that you don't fragment a processes execution too much. If a program has 2 threads, try and schedule them in close-time-proximity because causation may exist (through shared data) between them.
You also need to decide how your threads are implemented, and how a process is represented (be it heavy or lightweight) in the kernel. Are threads kernel managed? user-space managed? These things all have an impact on scheduler design. Look at how POSIX threads are implemented in various operating systems. There is just so much for you to think about :)
in short there are not really any straight-cut answers to where the logic does, or should reside. It is all down to design, application expectation, time-constraints (on the programs) and so on.
Hope this helps, I am not an expert here however.

Multicore + Hyperthreading - how are threads distributed?

I was reading a review of the new Intel Atom 330, where they noted that Task Manager shows 4 cores - two physical cores, plus two more simulated by Hyperthreading.
Suppose you have a program with two threads. Suppose also that these are the only threads doing any work on the PC, everything else is idle. What is the probability that the OS will put both threads on the same core? This has huge implications for program throughput.
If the answer is anything other than 0%, are there any mitigation strategies other than creating more threads?
I expect there will be different answers for Windows, Linux, and Mac OS X.
Using sk's answer as Google fodder, then following the links, I found the GetLogicalProcessorInformation function in Windows. It speaks of "logical processors that share resources. An example of this type of resource sharing would be hyperthreading scenarios." This implies that jalf is correct, but it's not quite a definitive answer.
Linux has quite a sophisticated thread scheduler which is HT aware. Some of its strategies include:
Passive Loadbalancing: If a physical CPU is running more than one task the scheduler will attempt to run any new tasks on a second physical processor.
Active Loadbalancing: If there are 3 tasks, 2 on one physical cpu and 1 on the other when the second physical processor goes idle the scheduler will attempt to migrate one of the tasks to it.
It does this while attempting to keep thread affinity because when a thread migrates to another physical processor it will have to refill all levels of cache from main memory causing a stall in the task.
So to answer your question (on Linux at least); given 2 threads on a dual core hyperthreaded machine, each thread will run on its own physical core.
A sane OS will try to schedule computationally intensive tasks on their own cores, but problems arise when you start context switching them. Modern OS's still have a tendency to schedule things on cores where there is no work at scheduling time, but this can result in processes in parallel applications getting swapped from core to core fairly liberally. For parallel apps, you do not want this, because you lose data the process might've been using in the caches on its core. People use processor affinity to control for this, but on Linux, the semantics of sched_affinity() can vary a lot between distros/kernels/vendors, etc.
If you're on Linux, you can portably control processor affinity with the Portable Linux Processor Affinity Library (PLPA). This is what OpenMPI uses internally to make sure processes get scheduled to their own cores in multicore and multisocket systems; they've just spun off the module as a standalone project. OpenMPI is used at Los Alamos among a number of other places, so this is well-tested code. I'm not sure what the equivalent is under Windows.
I have been looking for some answers on thread scheduling on Windows, and have some empirical information that I'll post here for anyone who may stumble across this post in the future.
I wrote a simple C# program that launches two threads. On my quad core Windows 7 box, I saw some surprising results.
When I did not force affinity, Windows spread the workload of the two threads across all four cores. There are two lines of code that are commented out - one that binds a thread to a CPU, and one that suggests an ideal CPU. The suggestion seemed to have no effect, but setting thread affinity did cause Windows to run each thread on their own core.
To see the results best, compile this code using the freely available compiler csc.exe that comes with the .NET Framework 4.0 client, and run it on a machine with multiple cores. With the processor affinity line commented out, Task Manager showed the threads spread across all four cores, each running at about 50%. With affinity set, the two threads maxed out two cores at 100%, with the other two cores idling (which is what I expected to see before I ran this test).
EDIT:
I initially found some differences in performance with these two configurations. However, I haven't been able to reproduce them, so I edited this post to reflect that. I still found the thread affinity interesting since it wasn't what I expected.
using System;
using System.Collections.Generic;
using System.Linq;
using System.Diagnostics;
using System.Runtime.InteropServices;
using System.Threading.Tasks;
class Program
{
[DllImport("kernel32")]
static extern int GetCurrentThreadId();
static void Main(string[] args)
{
Task task1 = Task.Factory.StartNew(() => ThreadFunc(1));
Task task2 = Task.Factory.StartNew(() => ThreadFunc(2));
Stopwatch time = Stopwatch.StartNew();
Task.WaitAll(task1, task2);
Console.WriteLine(time.Elapsed);
}
static void ThreadFunc(int cpu)
{
int cur = GetCurrentThreadId();
var me = Process.GetCurrentProcess().Threads.Cast<ProcessThread>().Where(t => t.Id == cur).Single();
//me.ProcessorAffinity = (IntPtr)cpu; //using this line of code binds a thread to each core
//me.IdealProcessor = cpu; //seems to have no effect
//do some CPU / memory bound work
List<int> ls = new List<int>();
ls.Add(10);
for (int j = 1; j != 30000; ++j)
{
ls.Add((int)ls.Average());
}
}
}
The probability is essentially 0% that the OS won't utilize as many physical cores as possible. Your OS isn't stupid. Its job is to schedule everything, and it knows full well what cores it has available. If it sees two CPU-intensive threads, it will make sure they run on two physical cores.
Edit
Just to elaborate a bit, for high-performance stuff, once you get into MPI or other serious parallelization frameworks, you definitely want to control what runs on each core.
The OS will make a sort of best-effort attempt to utilize all cores, but it doesn't have the long-term information that you do, that "this thread is going to run for a very long time", or that "we're going to have this many threads executing in parallel". So it can't make perfect decisions, which means that your thread will get assigned to a new core from time to time, which means you'll run into cache misses and similar, which costs a bit of time. For most purposes, it's good enough, and you won't even notice the performance difference. And it also plays nice with the rest of the system, if that matters. (On someone's desktop system, that's probably fairly important. In a grid with a few thousand CPU's dedicated to this task, you don't particularly want to play nice, you just want to use every clock cycle available).
So for large-scale HPC stuff, yes, you'll want each thread to stay on one core, fixed. But for most smaller tasks, it won't really matter, and you can trust the OS's scheduler.
This is a very good and relevant question. As we all know, a hyper-threaded core is not a real CPU/core. Instead, it is a virtual CPU/core (from now on I'll say core). The Windows CPU scheduler as of Windows XP is supposed to be able to distinguish hyperthreaded (virtual) cores from real cores. You might imagine then that in this perfect world it handles them 'just right' and it is not an issue. You would be wrong.
Microsoft's own recommendation for optimizing a Windows 2008 BizTalk server recommends disabling HyperThreading. This suggests, to me, that the handling of hyper-threaded cores isn't perfect and sometimes threads get a time slice on a hyper-threaded core and suffer the penalty (a fraction of the performance of a real core, 10% I'd guess, and Microsoft guesses 20-30%).
Microsoft article reference where they suggest disabling HyperThreading to improve server efficiency: http://msdn.microsoft.com/en-us/library/cc615012(BTS.10).aspx
It is the SECOND recommendation after BIOS update, that is how important they consider it. They say:
FROM MICROSOFT:
"Disable hyper-threading on BizTalk
Server and SQL Server computers
It is critical hyper-threading be
turned off for BizTalk Server
computers. This is a BIOS setting,
typically found in the Processor
settings of the BIOS setup.
Hyper-threading makes the server
appear to have more
processors/processor cores than it
actually does; however hyper-threaded
processors typically provide between
20 and 30% of the performance of a
physical processor/processor core.
When BizTalk Server counts the number
of processors to adjust its
self-tuning algorithms; the
hyper-threaded processors cause these
adjustments to be skewed which is
detrimental to overall performance. "
Now, they do say it is due to it throwing off the self-tuning algorithms, but then go on to mention contention problems (suggesting it is a larger scheduling issue, at least to me). Read it as you will, but I think it says it all. HyperThreading was a good idea when were with single CPU systems, but is now just a complication that can hurt performance in this multi-core world.
Instead of completely disabling HyperThreading, you can use programs like Process Lasso (free) to set default CPU affinities for critical processes, so that their threads never get allocated to virtual CPUs.
So.... I don't think anyone really knows just how well the Windows CPU Scheduler handles virtual CPUs, but I think it is safe to say that XP handles it worst, and they've gradually improved it since then, but it still isn't perfect. In fact, it may NEVER be perfect because the OS doesn't have any knowledge of what threads are best to put on these slower virtual cores. That may be the issue there, and why Microsoft recommends disabling HyperThreading in server environments.
Also remember even WITHOUT HyperThreading, there is the issue of 'core thrashing'. If you can keep a thread on a single core, that's a good thing, as it reduces the core change penalties.
You can make sure both threads get scheduled for the same execution units by giving them a processor affinity. This can be done in either windows or unix, via either an API (so the program can ask for it) or via administrative interfaces (so an administrator can set it). E.g. in WinXP you can use the Task Manager to limit which logical processor(s) a process can execute on.
Otherwise, the scheduling will be essentially random and you can expect a 25% usage on each logical processor.
I don't know about the other platforms, but in the case of Intel, they publish a lot of info on threading on their Intel Software Network. They also have a free newsletter (The Intel Software Dispatch) you can subscribe via email and has had a lot of such articles lately.
The chance that the OS will dispatch 2 active threads to the same core is zero unless the threads were tied to a specific core (thread affinity).
The reasons behind this are mostly HW related:
The OS (and the CPU) wants to use as little power as possible so it will run the tasks as efficient as possible in order to enter a low power-state ASAP.
Running everything on the same core will cause it to heat up much faster. In pathological conditions, the processor may overheat and reduce its clock to cool down. Excessive heat also cause CPU fans to spin faster (think laptops) and create more noise.
The system is never actually idle. ISRs and DPCs run every ms (on most modern OSes).
Performance degradation due to threads hopping from core to core are negligible in 99.99% of the workloads.
In all modern processors the last level cache is shared thus switching cores isn't so bad.
For Multi-socket systems (Numa), the OS will minimize hopping from socket to socket so a process stays "near" its memory controller. This is a complex domain when optimizing for such systems (tens/hundreds of cores).
BTW, the way the OS knows the CPU topology is via ACPI - an interface provided by the BIOS.
To sum things up, it all boils down to system power considerations (battery life, power bill, noise from cooling solution).

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