Malloc error code 3

Crashing on malloc: *** mach_vm_map(size=484315136) failed (error code=3) #1216

I keep getting crashes that output this:

Any idea on what would be the best way to start debugging?
I’m using the latest stable as I’m not at the moment able to set up an build-env.

There’s nothing special in my code, it’s just hundreds of these

shrunk down in CSS with height (yes, there is a reason I’m not cutting the text itself).

This seems to happen somewhat randomly when doing things that require redraws.

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The text was updated successfully, but these errors were encountered:

Valgrind is usually the best way to figure out what’s up with malloc crashes. But unless you know the inner workings of Chromium you probably won’t be able to get much from it.

Can you make a small version of your app that causes the crash? Usually malloc crashes are related to memory, so it may just be something wrong with the ram on your computer?

I’ll try isolating the problem but it might be hard is this is somewhat random.
But first, it might be a good idea to run Memtest, although if it were a problem with my machine, I most likely would have run into some other problems as well.

I’m dealing with this problem too.

My app loads thousands of images and render them to the canvas. In my setup, this only happens upon hitting the refresh button of nw, though not always. I cannot reproduce this error just from my javascript code.

I suspect this is some form of memory leak or garbage collection problems. I’m still profiling it, but it doesn’t look like it was my fault.

Could you please provide a runnable case to help me reproduce the issue here?

I’ll see if it’s possible to provide a minimal case. I have subsequently discovered that this is definitely related to memory leak, though I don’t know which one is to blame. I’m using AngularJS. To identify the cause of this, I’m using ‘Record heap allocation’ in the ‘Profiles’ tab. Each time I reload the page, object count and retained size goes up. And if you observe the total memory of ‘node-webkit Helper’ in Activity Monitor (Mac), you’ll also see it going up.

I’m not doing anything weird in AngularJS other than data binding. Each time the page is reloaded, the new heap shows that previous added DOM elements aren’t freed, and I suppose my internal array isn’t freed either. The object count for DOM elements will be doubled for the second reload.

I believe when total memory of ‘node-webkit Helper’ goes near 3GB, it crashes with the above message. I’m starting to think it’s a problem of garbage collection in node-webkit. Do you have a guess of where this problem might be?

A wild guess is that the window object or the Window object from nw.gui module is leaked. Can it be reproduced by just keeping reloading some AngularJS sample?

I’m working on a minimal case. It should be perceivable when the data set is large enough. I’m not quite positive yet because there are DOM elements in my $scope array, which according to http://thenittygritty.co/angularjs-pitfalls-using-scopes is a no go. But it doesn’t explain why the AngularJS generated template DOM elements aren’t freed either.

This is a single page app using AngularJS to generate 1000 random number in LI tag. To see the problem I’m talking about, launch it with node-webkit and open the Profiles tab.

When the page finishes loading, click ‘Record heap allocation’ and click stop after several seconds. You’ll see that 10MB of memory is allocated, and 1002 HTMLLIElement is counted for (don’t know where the extra 2 comes from). And if you reload the page and record, the number goes up to 19MB and 2004 accordingly.

This does not happen in my Chrome 30.0.1599.101 Mac. Haven’t tested it on Windows yet.

This however, do not generate the crash mentioned in this issue. You’ll have to repeat a lot or use a larger data set with actual content.

@lahdekorpi could you please provide your case as well?

Hi again. I’m not sure if it’s related. But since upgraded to OS X 10.9, I’m see the following additional warnings when starting node-webkit:

2013-10-22 22:52:58.817 node-webkit[47796:507] Internals of CFAllocator not known; out-of-memory failures via CFAllocator will not result in termination. http://crbug.com/45650
2013-10-22 22:52:59.116 node-webkit Helper[47797:507] Internals of CFAllocator not known; out-of-memory failures via CFAllocator will not result in termination. http://crbug.com/45650
2013-10-22 22:52:59.274 node-webkit Helper[47798:507] Internals of CFAllocator not known; out-of-memory failures via CFAllocator will not result in termination. http://crbug.com/45650
[47798:1022/225259:INFO:gpu_command_buffer_stub.cc(459)] Created virtual GL context.
Oct 22 22:52:59 wheeler-prospect.local node-webkit Helper[47797] : The function `CGFontSetShouldUseMulticache’ is obsolete and will be removed in an upcoming update. Unfortunately, this application, or a library it uses, is using this obsolete function, and is thereby contributing to an overall degradation of system performance.

From the page: http://crbug.com/45650, it looks like chromium requires updating, could this be the culprit?

@heshiming I keep reloading the page for several times. But the numbers of HTMLLIElement remains 2004.

@rogerwang Hmm. it’s true. I’ll get back to you.

@rogerwang , I observe the following behavior. You open the app with node-webkit, without the developer tools window, refresh it for several times. Then you record heap, you’ll see LI count is already 2004. At this point, if you refresh again and record, you’ll see it going up to 3006. But it stays there afterwards.

I don’t know if the profiler can identify this leak. I changed the random number count to 10000, upon start, ‘node-webkit Helper’ process uses about 130MB. After first refresh, it goes to 223MB, second, 342MB. It keeps going up until it reaches 430MB. Then garbage collector kicks in? This behavior is not identical to what was seen in the profiler.

At this point if you open up developer tools, it adds another 200MB to the process. And if you refresh it, you’ll see it goes up until somewhere near 930MB. It won’t go down.

I also notice that the other reload button at top right, seems to be able to ‘reboot’ node-webkit.

Источник

malloc: error for object 0x3: pointer being freed was not allocated #77404

backdrop_filter_perf_ios__timeline_summary flaked on unrelated PR 7e02cc3

The text was updated successfully, but these errors were encountered:

Also on flutter_gallery_ios__transition_perf:

@jmagman: Right now, errors like this are hard to trace because they have no backtrace. However, setting the appropriate environment variables (specifically MallocStackLogging ) before running running the application should give us more detailed information. Can we enable this for our perf tests please?

As an aside, we should enable the same for engine unit-tests and also enable asan instrumented builds.

Can we enable this for our perf tests please?

I don’t know how adding the Malloc env variables would impact the benchmark numbers. This one is https://github.com/flutter/flutter/tree/master/dev/benchmarks/macrobenchmarks/ios. Feel free to edit anything that would be useful for the engine team to triage.

I don’t know how adding the Malloc env variables would impact the benchmark numbers.

Negatively, and significantly so.

It is probably not viable to enable this for the benchmarks. But it could be useful in de-flaking. Right now, there is very little information to work with.

If the malloc flags will be too big a hit to enable by default, then this will have to be repro’d locally with the flags. This sort of flake makes me nervous esp. when we aren’t getting a backtrace to help localize it, so I am going to bump this to P2, and work on finding an owner. The priority can be dropped once we know where this is coming from, if appropriate.

Источник

проблема malloc с кодом OpenCL — Огромный размер mach_vm_map в OS X

У меня проблема с переносом кода OpenCL из Linux (где он работает) в Mac OS X 10.9.5.

В той части этого кода, где я использую malloc, когда я запускаю исполняемый файл, я получаю следующую ошибку:

Как видите, запрошенная память огромна: 1556840295209897984 байта, поэтому выделение не выполняется.

Вот процедура для части выделения (NumBodies в моем случае — 30720):

Я не знаю, есть ли связь, но я узнал о https://bugs.openjdk.java.net/browse/JDK-8043507 (с языком Java), что в OS X мы должны указать тип uint32_t для размера.

Возможно, эта проблема связана с компилятором Clang, который я использую для компиляции.

Я попытался также установить numBodies на 3072, чтобы увидеть огромный размер mach_vm_map и я получаю:

таНос: * mach_vm_map (size = 868306322687266816) не удалось (код ошибки = 3)
* ошибка: невозможно выделить регион
*** установить точку останова в malloc_error_break для отладки

Я заметил, что эти размеры всегда меняются для разных исполнений.

Наконец, у меня была для версии Linux для pos а также vel массивы в вышеупомянутую процедуру:

вместо malloc, используя:

Я видел, что в OS X данные были выровнены по умолчанию на границе 16 байт, поэтому я заменяю memalign от malloc для версии MacOS

Если бы у кого-то была подсказка, это было бы неплохо.

ОБНОВИТЬ :

Ошибка возникает между « cout «а» cout «, поэтому он терпит неудачу на clCreateProgramWithSource метод:

При исполнении я получаю:

а также status = -6 соответствует CL_OUT_OF_HOST_MEMORY

Хочу заметить, что у меня в MacBook 2 графических процессора (Iris Pro Device и GeForce GT 750M). У меня одинаковая ошибка для обоих устройств.

Решение

Попробуйте создать программу следующим образом:

Источник

MemoryError: «can’t allocate region set a breakpoint in malloc_error_break to debug» #675

I am running the demo in Python3 on macOS Sierra 10.12.6

Can someone help me to resolve this?

The text was updated successfully, but these errors were encountered:

It seems to be running out of RAM when doing the simulations for the future trend uncertainty. There are a few places this might be happening, could you answer a couple questions:

• What version of fbprophet are you using?

There was a change in 0.3 that eliminates one particular source of memory issues in future trend uncertainty.

• How many rows are in your future dataframe?

I’m hoping this was resolved, but if anyone is still having this issue please re-open and hopefully we can determine why the RAM usage was so high.

The fb_prophet version is 0.3.

and still getting the error

The file has 1300 lines.

@bletham can you reopen this? This is still unsolved.

Is the 1300 rows the length of the history dataframe being given to fit , or the length of the future dataframe being given to predict ? The latter length is the one that would matter here.

What arguments are you using to Prophet() ? Any changes to changepoints or uncertainty_samples ?

Is there any chance you could attach the data so I could look into what is happening in this dataset in more detail?

I’m surprised to see memory issues with 1300 rows. The examples in the documentation have more rows than that — are you able to fit this dataset or does it run into memory issues also?
https://github.com/facebook/prophet/blob/master/examples/example_wp_log_peyton_manning.csv

@bletham I am having the same issue. 715 rows of daily data. I have run similar datasets without issues. Future is being fed 30 periods. Tried 10 periods, 360 periods, 5 periods, I get the same error. Memory was 15GBs and ran fine until this dataset, upgraded to 26 GBs and still same issue on all future() periods.

Is there any chance you can upload the dataset so I can try to reproduce? That seems like far too small a dataset to cause memory issues.

OK, I see what the issue is. Internally, fbprophet uses pandas to convert the ds column to a timestamp. When I export the spreadsheet to csv and do

you can see that the ds column is being treated by pandas as nanoseconds. This is because it is missing the hyphens (like 2017-01-01 ) that would cause pandas to correctly interpret it as YYYY-MM-DD.

This causes a memory issue because basically we are fitting the model to a time series that lasts a matter of nanoseconds, and then making predictions for days out, which induces a very large number of potential future changepoints when estimating future trend uncertainty.

The R versions is much stricter and requires specifically YYYY-MM-DD. In Py we try to be less strict and let pandas infer the date formatting, but sometimes that can go poorly like here. We make this more strict in the future, perhaps have it throw an error if the column can be cast to int (which I think is the situation in which pd treats it as nanoseconds).

Источник

malloc error with SVD #8183

Description

I have a malloc error with TruncatedSVD.
My issue seems closed to #7626

Steps/Code to Reproduce

Code to reproduce my error:

python crashes with a segfault:

I reproduce the bug all the time.
I have 8GB RAM on my computer and I have some enough RAM left when running the code.
With algorithm=’arpack’ it works. I can even set n_components to 250 for instance.

Versions

My configuration:
Darwin-15.6.0-x86_64-i386-64bit
Python 3.5.2 (default, Oct 11 2016, 15:01:29)
[GCC 4.2.1 Compatible Apple LLVM 7.3.0 (clang-703.0.31)]
NumPy 1.11.2
SciPy 0.18.1
Scikit-Learn 0.18.1

The text was updated successfully, but these errors were encountered:

I’m not managing to replicate, at 0.18.1 or at master:

Even increasing n_components ? For me it works with n_components=20 but not for n_components=25

Even increasing n_components .

Ok, too bad. On my laptop, I stopped all applications and I still reproduce the bug all the time.

The main difference I see with your setup and mine is that I installed python with macports whereas you have a conda installation.

@lsamper How did you install scikit-learn, via pip install ?

I think so but I am not sure. How can I check?

Having the same issue on another Macbook Pro. System details are:
macOS Sierra
16GB of RAM
Apple LLVM version 8.0.0 (clang-800.0.42.1)
Python 3.5.2
scikit-learn 0.18.1 (installed via pip)

The TruncatedSVD class is trying to allocate an enormous amount of RAM with

which results in malloc error.

Running with the option algorithm=’arpack’ suggested by @DandikUnited in #7626 (comment) avoids the error, btw

Bug not reproduced in Ubuntu 64bit , Core i5.

@jnothman can you reproduce with scikit-learn installed through pip?

@jnothman can you reproduce with scikit-learn installed through pip?

Источник

Amoeba-2:deconseq asmirnov$ perl deconseq.pl -f PK_new.fasta -dbs 'bactDB' -i 90 -c 90 -out_dir output
[bsw2_aln] read 46 sequences (10130812 bp)...

bwaMAC(24691,0xa2ec5000) malloc: *** mach_vm_map(size=8388608) failed (error code=3)

*** error: can't allocate region

*** set a breakpoint in malloc_error_break to debug

ERROR: system call "/users/asmirnov/deconseq/bwaMAC bwasw -A -f output/1546564095_bactDB_bactDB_s1.tsv /users/asmirnov/deconseq/bactDB_s1 PK_new.fasta" failed: 11.

Try 'deconseq -h' for more information.

Exit program.

package DeconSeqConfig;

use strict;

use constant DEBUG => 0;
use constant PRINT_STUFF => 1;
use constant VERSION => '0.4.3';
use constant VERSION_INFO => 'DeconSeq version '.VERSION;

use constant ALPHABET => 'ACGTN';

use constant DB_DIR => '/users/asmirnov/deconseq/';
use constant TMP_DIR => '/users/asmirnov/deconseq/tmp/';
use constant OUTPUT_DIR => '/users/asmirnov/deconseq/output/';

use constant PROG_NAME => 'bwaMAC';  # should be either bwa64 or bwaMAC (based on your system architecture)
use constant PROG_DIR => '/users/asmirnov/deconseq/';      # should be the location of the PROG_NAME file (use './' if in the same location at the perl script)

use constant DBS => { hsref => { name => 'Human - Craig Venter (HuRef)',
                                 db =>   'hs_alt_HuRef_s1,hs_alt_HuRef_s2,hs_alt_HuRef_s3' },
                      arch =>  { name => 'Archaeal genomes [155 unique genomes, 02/12/11]',
                                 db =>   'archDB_s1' },
                      bactDB => { name => 'Bacterial genomes [2,206 unique genomes, 02/12/11]',
                                 db =>   'bactDB_s1,bactDB_s2,bactDB_s3' },
                      vir =>   { name => 'Viral genomes in RefSeq 45 [3,761 unique sequences, 02/12/11]',
                                 db =>   'virDB_s1' },                     
              };
use constant DB_DEFAULT => 'bactDB';

#######################################################################

use base qw(Exporter);

use vars qw(@EXPORT);

@EXPORT = qw(
             DEBUG
             PRINT_STUFF
             VERSION
             VERSION_INFO
             ALPHABET
             PROG_NAME
             PROG_DIR
             DB_DIR
             TMP_DIR
             OUTPUT_DIR
             DBS
             DB_DEFAULT
             );

1;

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