parfor | A package to mimic the use of parfor as done in Matlab
kandi X-RAY | parfor Summary
kandi X-RAY | parfor Summary
Used to parallelize for-loops using parfor in Matlab? This package allows you to do the same in python. Take any normal serial but parallelizable for-loop and execute it in parallel using easy syntax. Don't worry about the technical details of using the multiprocessing module, race conditions, queues, parfor handles all that. Tested on linux on python 2.7 and 3.8 and on Windows and OSX on python 3.8.
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- Print error in main thread
- Close the queue
- Empty queue
- Decorator to create a function from a function
- Map a function over an iterable
- Get the latest task from the queue
- Get a task from the queue
- Called when a task is done
- Update the qbar
- Called when an error occurs
- Close queue
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parfor Key Features
parfor Examples and Code Snippets
Community Discussions
Trending Discussions on parfor
QUESTION
First, I asked this question Numba : Why guvectorize is so slow?. Trying many things as I am discovering numba, this more basic question arose
Why this code works (parallel flag set to False):
...ANSWER
Answered 2021-Dec-13 at 19:44Not sure wether it is strictly necessary in your project that you allocate the result array outside of the function scope and pass it to the function as argument. Otherwise this code modification runs perfectly fine:
QUESTION
I want to generate same normal random numbers for loop and parfor loop. Following MATLAB documentation I tried three different method:
Method 1: Using rng(seed, 'twister')
...ANSWER
Answered 2021-Dec-04 at 00:52I'm inferring that your concern is that the pseudorandomly generated numbers for your for
and parfor
loops did not match. This is however expected behavior. You used a MRG32K3A pseudorandom algorithm, which "does not make a guarantee that a fixed seed and a fixed series of calls to mrg32k3a.RandomState methods using the same parameters will always produce the same results." Source.
So it appears that everything is working correctly.
QUESTION
I need some help with parallel programming in MATLAB. To be clear, I have never implemented parallelization techniques in any of my codes before. I have a video compression engine, developed as part of my university project. It is a basic verion of H.264 video compression engine. I have to implement the parallel proceesing techniques available in MATALB to this engine. Basically, I have a function which divides an image frame into a number of blocks (predtermined by the size of the block). I'm trying to partially or fully parallelize this block of the code. I have used "parfor" when there was no dependency between the blocks, and this worked out well. I have uploaded this implementation. Now I'm trying to parallalize a case were there are dependencies between blocks.
...ANSWER
Answered 2021-Dec-01 at 04:06You can use a parfor
inside a non parallel for
, something like this:
QUESTION
I am currently running a compute-intensive financial trading test; the test has 503 independent loops. I have two PCs in my office, one has 10-core Intel i9-10900k @ 3.7GHz with 128GB DDR4; the other one has 18-core Intel i9-7980XE @ 3.4GHz with 128GB DDR4 as well.
In order to speed up the whole processing, the first 10-core PC runs loop 1-to-189 in parfor; the second 18-core PC runs loop 190-to-503 in parfor.
After one-day running, I found the 10-core PC finished 25 loops, the 18-core PC only finished 4 loops. I found very curious, can anyone know the reason of this problem?
P.S. 10-core PC running MATLAB 2020b with latest updates with MOSEK 9.2.35 18-core PC running MATLAB 2021a with latest updates with MOSEK 9.2.36
I also checked the taskmgr.exe, unlike the 10-core PC, I found in 18-core PC, 10 matlab tasks are in one group, the other 10 tasks are seperated....
...ANSWER
Answered 2021-Aug-27 at 15:53Many thanks to Michal Adamaszek, When using the MOSEK (interior-point or integer programming) inside parfor loop, it is better to turn off the multi-threads in MOSEK, otherwise, by default, MOSEK will using all cores.
QUESTION
I'm running a parallel Matlab job on a single node of a remote cluster. Each node of the cluster has 2 processors with 24 cores each, for a total of 48 cores per node. The job contains some sequential code followed by a single parfor
loop. I run it using a slurm
bash script.
The bash script test.sh
is:
ANSWER
Answered 2021-Jun-28 at 07:00I bet your parallel pool is timing-out in between your parfor
loops. It then gets auto-created with size 12, as that is the default preference for "preferred number of workers in a parallel pool" (doc). (Personally, I don't much care for that preference, and always set the value to 99999 and let other things control the size of the pool, but in your case you might not be able to if your SLURM workers don't share a MATLAB preferences directory (prefdir
) with your client).
I suggest you create your pool of size 48 with an IdleTimeout
of Inf
, like this:
QUESTION
I am using Matlab to work on my project, and I want to use "parfor" as a part of my code that returns an array of structures in each its iteration, But when I run my code I got some errors. I just tried to bring an example of my problem in the simplest way. Will be appreciated any helps! Here is the example:
...ANSWER
Answered 2021-Jun-21 at 21:04Find the solution, just need to define a cell array and then finally merge them! Follow can be an answer:
QUESTION
I have huge dynamically created tables/matrices in MATLAB of varying first dimension, whose rows represent (sorted) combinations of integers in the range 1-50 of order 6.
I would like to assign to each combination a unique value (hash, ranking), so that I can check if the same combinations appear in different tables. Different combinations are not allowed to have same value assigned, i.e. no collisions. I have to make a lot of such comparisons between a lot of such tables. So, for performance reasons, I would like to accomplish this by vectorization of uint32
operations to make it suitable for GPU acceleration in MATLAB.
Things I have thought of so far:
- Lexicographic ranking: no idea how to vectorize the standard fast recursive algorithms well, and the only option seems to be to
parfor
it through the rows, which is slower than other options. IIRC, the direct explicit formula, though vectorizable, requires computation of binomials, which in turn requireslog Gamma
function in order to avoid huge factorials +double
type to avoid collision if I am not mistaken, i.e. is slower because it's 'very numerical'. - Cantor pairing function: one can successively apply Cantor's pairing, which is nice because it's a polynomial expression, but it produces huge numbers well beyond
uint32
and is definitely slower than other options. - Base 51 (no pun intended) integers: sends a combination/row vector
(x_1,...,x_6)
tox_1 + x_2 * 51 + ... + x_6 * 51^5
. This is the fastest I currently have. It's easily vectorizable, but unfortunately still requiresuint64
ordouble
for rank-6 combinations of 50 elements, which is slower thanuint32
orsingle
type operations would be.
So, I guess, I am looking for a 'clever' injective function on these combinations that computes within the
uint32
range and is also well vectorizable (in MATLAB).
Any help would be much appreciated!
EDIT: Here is a routine that benchmarks both ranking and searching in uint32
, single
, and double
. I have used MATLAB's gputimeit
to produce accurate results.
ANSWER
Answered 2021-May-10 at 12:41You've almost got enough bits for your last idea, so you just need to squeeze a few bits out due to the ordering to get it over the bar. Since the whole sequence is sorted, every pair is also ordered. So use a 50-by-50 look-up table to map the sorted (1st,2nd), (3rd,4th), (5th,6th) pairs into numbers from 0-1274.
Or if you don't want a table, there are fairly simple explicit functions for mapping a pair (i,j) with j>=i to a linear index. Look up upper- or lower-triangular matrix indexing for details on those. (It'll be something along the lines of
n*(n+1)/2 - (n-i)*(n-i-1)/2 + j
with some +/-1's thrown in depending on base-0 or base-1 indexing, and n=50 in your case, but I'm sure I'll get it wrong writing it off-the-cuff.)
Anyway, once you've got three numbers 0-1274, the base-1275 idea will fit in uint32
.
QUESTION
I am using 'fminsearch' in Matlab to solve the value function iteration problem.
...ANSWER
Answered 2021-May-13 at 06:20Multiple startpoints is a well known practice for local optimization algorithms. Perhaps you can try a different algorithm like simumated annealing.
Another way is to use global optimization algorithms like DIRECT (Dividing Rectangles) or Baysian Optimization if you do not know the gradient of the function
QUESTION
I have an assignment to implement a parallel version of the longest common subsequence algorithm (just calculating the LCS length). The program must use threads in order to complete the task as quickly as possible (at least, faster than a sequential implementation). Ideally, it should also utilize TLS in the threads. We had a similar assignment that implemented a template within a .hpp file and I want to use the same template, but it does not seem like I can use a .hpp file in this assignment. My problem lies in passing the template function to my threads. Below is the code:
...ANSWER
Answered 2021-May-09 at 16:23You are right, you cannot pass a function template as if it was a function. They are different things, just like a cookie cutter is not a cookie.
You have two main problems in your code.
First, since ParFor::parfor is a template, you can only take a member function pointer to it if you provide template parameters that match what your lambdas use for TLS, so change it to this (for example):
QUESTION
I am using Pari/GP to test (pseudo)primality of a sequence of numbers f(n)
, where f(n)
is some function. I have parallelized the code as
ANSWER
Answered 2021-Feb-25 at 13:03I solved (in a very dirty way probably) like this
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Install parfor
You can use parfor like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.
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