Matlab Segfaults with OMP Error

Hi Everyone,

we are a research group, using multiple Matlab versions on some linux systems. After a recent updates, across different Matlab versions, all of them crash whenever matlab decides to multithread a computation. Simple example is a QR decomp via qr(rand(100,100)).

The resulting error is:

OMP: Error #29: Unable to set OMP thread stack size to 525440:
OMP: System error #22: Invalid argument
OMP: Hint Try increasing OMP_STACKSIZE or the shell stack limit.
Segmentation fault                     (core dumped) ./matlab

and the stack trace is:

OMP: Error #29: Unable to set OMP thread stack size to 525440 bytes:
OMP: System error #22: Invalid argument
OMP: Hint Try increasing OMP_STACKSIZE or the shell stack limit.

MATLAB Log File: /home/$username/matlab_crash_dump.1602-1

------------------------------------------------
MATLAB Log File
------------------------------------------------ 


--------------------------------------------------------------------------------
                 abort() detected at 2025-10-18 04:20:05 +0200
--------------------------------------------------------------------------------

Configuration:
  Crash Decoding           : Disabled - No sandbox or build area path
  Crash Mode               : continue (default)
  Default Encoding         : UTF-8
  Deployed                 : false
  GNU C Library            : 2.42 stable
  Graphics Driver          : Unknown software 
  Graphics card 1          : 0x10de ( 0x10de ) 0x2204 Version 580.95.5.0 (0-0-0)
  Java Version             : Java 1.8.0_202-b08 with Oracle Corporation Java HotSpot(TM) 64-Bit Server VM mixed mode
  MATLAB Architecture      : glnxa64
  MATLAB Entitlement ID    : 1971833
  MATLAB Root              : /usr/local/MATLAB/R2021b
  MATLAB Version           : 9.11.0.2179507 (R2021b) Update 5
  OpenGL                   : software
  Operating System         : Linux 6.12.53-1-lts #1 SMP PREEMPT_DYNAMIC Wed, 15 Oct 2025 11:05:48 +0000 x86_64
  Process ID               : 1602
  Processor ID             : x86 Family 143 Model 113 Stepping 0, AuthenticAMD
  Session Key              : dbcb8a74-44ab-46a5-96da-511734bf8746
  Static TLS mitigation    : Enabled: Full
  Window System            : The X.Org Foundation (12101015), display redqueen:11.0

Fault Count: 1


Abnormal termination:
abort()

Current Thread: 'MCR 0 interpret' id 139753454302912

Register State (from fault):
  RAX = 0000000000000000  RBX = 000000000000068b
  RCX = 00007f1b2429894c  RDX = 0000000000000006
  RSP = 00007f1ae2fe25e0  RBP = 00007f1ae2fe2620
  RSI = 000000000000068b  RDI = 0000000000000642

   R8 = 0000000000000018   R9 = 0000000000000000
  R10 = 0000000000000000  R11 = 0000000000000246
  R12 = 00007f1b033d3a78  R13 = 00007f19ae5b6400
  R14 = 0000000000000006  R15 = 00007f1b033d3988

  RIP = 00007f1b2429894c  EFL = 0000000000000246

   CS = 0033   FS = 0000   GS = 0000

Stack Trace (from fault):
[  0] 0x00007f1b2429894c                                 /usr/lib/libc.so.6+00624972
[  1] 0x00007f1b2423e410                                 /usr/lib/libc.so.6+00254992 gsignal+00000032
[  2] 0x00007f1b2422557a                                 /usr/lib/libc.so.6+00152954 abort+00000038
[  3] 0x00007f1b030bd7f7 /usr/local/MATLAB/R2021b/bin/glnxa64/../../sys/os/glnxa64/libiomp5.so+00776183
[  4] 0x00007f1b030a7abb /usr/local/MATLAB/R2021b/bin/glnxa64/../../sys/os/glnxa64/libiomp5.so+00686779
[  5] 0x00007f1b031314dc /usr/local/MATLAB/R2021b/bin/glnxa64/../../sys/os/glnxa64/libiomp5.so+01250524
[  6] 0x00007f1b030b15fa /usr/local/MATLAB/R2021b/bin/glnxa64/../../sys/os/glnxa64/libiomp5.so+00726522
[  7] 0x00007f1b030b7efd /usr/local/MATLAB/R2021b/bin/glnxa64/../../sys/os/glnxa64/libiomp5.so+00753405
[  8] 0x00007f1b030b562f /usr/local/MATLAB/R2021b/bin/glnxa64/../../sys/os/glnxa64/libiomp5.so+00742959 __kmp_fork_call+00004335
[  9] 0x00007f1b03078533 /usr/local/MATLAB/R2021b/bin/glnxa64/../../sys/os/glnxa64/libiomp5.so+00492851 __kmpc_fork_call+00000387
[ 10] 0x00007f0ddf55f56b        /usr/local/MATLAB/R2021b/bin/glnxa64/mkl.so+05633387 mkl_lapack_dgeqrf_pfnr+00000587
[ 11] 0x00007f0ddf7e5b10        /usr/local/MATLAB/R2021b/bin/glnxa64/mkl.so+08280848 mkl_lapack_xdgeqrf+00000576
[ 12] 0x00007f0ddf5484a4        /usr/local/MATLAB/R2021b/bin/glnxa64/mkl.so+05538980 mkl_lapack_dgeqrf+00005428
[ 13] 0x00007f0ddf399a6c        /usr/local/MATLAB/R2021b/bin/glnxa64/mkl.so+03775084 DGEQRF+00000220
[ 14] 0x00007f1b04e75705 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmathlinalg.so+02578181
[ 15] 0x00007f1b04e6e8bf /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmathlinalg.so+02549951 _Z15mathlinalgQRFcniPSt10unique_ptrI11mxArray_tagN6matrix6detail17mxDestroy_deleterEEiPPKS0_+00000175
[ 16] 0x00007f18f29f66f0 /usr/local/MATLAB/R2021b/bin/glnxa64/builtins/mathlinalg/mwlibmwmathlinalg_builtinimpl.so+00337648
[ 17] 0x00007f1b1b65e8fa /usr/local/MATLAB/R2021b/bin/glnxa64/libmwbuiltin.so+00076026 _ZNK9MathWorks7builtin10BuiltinFcn6invokeEiPP11mxArray_tagiS4_NS1_18VariantsToConsiderE+00000106
[ 18] 0x00007f1b1a323b4e /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_dispatcher.so+00764750
[ 19] 0x00007f1b1a326938 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_dispatcher.so+00776504
[ 20] 0x00007f1b07e080ee /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+12615918
[ 21] 0x00007f1b07f58c91 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+13995153
[ 22] 0x00007f1b07f58f86 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+13995910
[ 23] 0x00007f1b07ee3f3d /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+13516605
[ 24] 0x00007f1b07eec030 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+13549616
[ 25] 0x00007f1b079abdc0 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08043968
[ 26] 0x00007f1b079adde4 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08052196
[ 27] 0x00007f1b079aae71 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08040049
[ 28] 0x00007f1b079a0d25 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+07998757
[ 29] 0x00007f1b079a1211 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08000017
[ 30] 0x00007f1b079aa6ba /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08038074
[ 31] 0x00007f1b079aa7b6 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08038326
[ 32] 0x00007f1b07ad8e1b /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+09276955
[ 33] 0x00007f1b07adbd40 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+09289024
[ 34] 0x00007f1b07d0b8b6 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+11581622
[ 35] 0x00007f1b07df5da2 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+12541346
[ 36] 0x00007f1b07df6264 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+12542564
[ 37] 0x00007f1b07df637d /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+12542845
[ 38] 0x00007f1b1a396df0 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_dispatcher.so+01236464 _ZN8Mfh_file20dispatch_file_commonEMS_FviPP11mxArray_tagiS2_EiS2_iS2_+00000208
[ 39] 0x00007f1b1a398a02 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_dispatcher.so+01243650 _ZN8Mfh_file19dispatch_with_reuseEiPP11mxArray_tagiS2_+00000306
[ 40] 0x00007f1ae1ee41ca /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcos_impl.so+05128650
[ 41] 0x00007f1ae1e640cf /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcos_impl.so+04604111
[ 42] 0x00007f1ae1e668ec /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcos_impl.so+04614380
[ 43] 0x00007f1ae1e6cc49 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcos_impl.so+04639817
[ 44] 0x00007f1ae1e650d5 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcos_impl.so+04608213
[ 45] 0x00007f1ae1fb528f /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcos_impl.so+05984911
[ 46] 0x00007f1ae1fb1872 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcos_impl.so+05970034
[ 47] 0x00007f1b1a3069da /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_dispatcher.so+00645594 _ZN18Mfh_MATLAB_fn_impl19dispatch_with_reuseEiPP11mxArray_tagiS2_+00000266
[ 48] 0x00007f1b07f7cd9e /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+14142878
[ 49] 0x00007f1b07f81125 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+14160165
[ 50] 0x00007f1b07f7cef5 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+14143221
[ 51] 0x00007f1b07f8687f /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+14182527
[ 52] 0x00007f1b07e097d8 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+12621784
[ 53] 0x00007f1b07f548eb /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+13977835
[ 54] 0x00007f1b07ee3f3d /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+13516605
[ 55] 0x00007f1b07ee5eb0 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+13524656
[ 56] 0x00007f1b079abdc0 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08043968
[ 57] 0x00007f1b079adde4 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08052196
[ 58] 0x00007f1b079aae71 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08040049
[ 59] 0x00007f1b079a0d25 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+07998757
[ 60] 0x00007f1b079a1211 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08000017
[ 61] 0x00007f1b079aa6ba /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08038074
[ 62] 0x00007f1b079aa7b6 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+08038326
[ 63] 0x00007f1b07ad8e1b /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+09276955
[ 64] 0x00007f1b07adbd40 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+09289024
[ 65] 0x00007f1b07d0b8b6 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+11581622
[ 66] 0x00007f1b07cb784c /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+11237452
[ 67] 0x00007f1b07cb850c /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+11240716
[ 68] 0x00007f1b07d59a64 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+11901540
[ 69] 0x00007f1b07d59c29 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwm_lxe.so+11901993
[ 70] 0x00007f1b1bb53489   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwiqm.so+00595081
[ 71] 0x00007f1b1bbb3762   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwiqm.so+00989026 _ZN3iqm14UserEvalPlugin7executeEP15inWorkSpace_tag+00000642
[ 72] 0x00007f1a91b6f31c /usr/local/MATLAB/R2021b/bin/glnxa64/libnativejmi.so+01008412 _ZN9nativejmi17JmiUserEvalPlugin7executeEP15inWorkSpace_tag+00000028
[ 73] 0x00007f1b1bb8ebdf   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwiqm.so+00838623
[ 74] 0x00007f1b1bb9a846   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwiqm.so+00886854
[ 75] 0x00007f1b1bb5e516   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwiqm.so+00640278
[ 76] 0x00007f1b1c9ccc02 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwbridge.so+00302082
[ 77] 0x00007f1b1c9cd543 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwbridge.so+00304451
[ 78] 0x00007f1b1c9d37f2 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwbridge.so+00329714 _Z22mnGetCommandLineBufferbRbN7mwboost8optionalIKP15inWorkSpace_tagEEbRKNS0_9function2IN6mlutil14cmddistributor17inExecutionStatusERKNSt7__cxx1112basic_stringIDsSt11char_traitsIDsESaIDsEEES4_EE+00000274
[ 79] 0x00007f1b1c9d3a92 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwbridge.so+00330386 _Z8mnParserv+00000482
[ 80] 0x00007f1b1b774307   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcr.so+00946951
[ 81] 0x00007f1b256b3bd0   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmvm.so+02833360 _ZNK7mwboost9function0IvEclEv+00000032
[ 82] 0x00007f1b256bba10   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmvm.so+02865680 _ZN14cmddistributor15PackagedTaskIIP10invokeFuncIN7mwboost8functionIFvvEEEEENS2_10shared_ptrINS2_13unique_futureIDTclfp_EEEEEERKT_+00000048
[ 83] 0x00007f1b256bbab8   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmvm.so+02865848 _ZNSt17_Function_handlerIFN7mwboost3anyEvEZN14cmddistributor15PackagedTaskIIP10createFuncINS0_8functionIFvvEEEEESt8functionIS2_ET_EUlvE_E9_M_invokeERKSt9_Any_data+00000024
[ 84] 0x00007f1b1bbaf14b   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwiqm.so+00971083 _ZN3iqm18PackagedTaskPlugin7executeEP15inWorkSpace_tag+00000091
[ 85] 0x00007f1b1b771f65   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcr.so+00937829
[ 86] 0x00007f1b1bb8ebdf   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwiqm.so+00838623
[ 87] 0x00007f1b1bb5c3cc   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwiqm.so+00631756
[ 88] 0x00007f1b1bb5ce60   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwiqm.so+00634464
[ 89] 0x00007f1b1b75c30e   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcr.so+00848654
[ 90] 0x00007f1b1b75c92c   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcr.so+00850220
[ 91] 0x00007f1b1b75cba2   /usr/local/MATLAB/R2021b/bin/glnxa64/libmwmcr.so+00850850
[ 92] 0x00007f1b2360f8a7 /usr/local/MATLAB/R2021b/bin/glnxa64/libmwboost_thread.so.1.72.0+00063655
[ 93] 0x00007f1b242969cb                                 /usr/lib/libc.so.6+00616907
[ 94] 0x00007f1b2431aa0c                                 /usr/lib/libc.so.6+01157644

One likely culprit is recent updates to glibc that don't play well with Matlab.

Currently, this really breakes any usage of Matlab for our group. Maybe a recompile of the libiomp5.so might already fix it?

Looks like a Matlab bug. New installation did not fix the problem.

[Star Strider]

Contact Support

Include the URL of this thread in your note to MathWorks so you do not have to repeat everything you wrote here.

Were the updates to MATLAB, your Linux installation, or both?

(I am using R2025b with Ubuntu 24.04 with all the latest updates to both, without problems. Also see MATLAB System Requirements for Linux, and related requirements.)

.

[Lukas Glandorf]

Hi Star Strider,

thanks for your input!

I also contacted matlab support.

We are running an up-to-date arch linux (that is not officially supported, I am aware...)

Updates have been to the linux installation, not matlab.

[Star Strider]

My pleasure!

The lack of MATLAB support for your Linux distro is going to be a persistent problem.

Good luck!

Answer 1

[Lukas Glandorf]

With the help of Matlab support, we found a workaround fix by setting the environment variable:

MATLAB_UNSET_STACKSIZE=1

in the terminal before running Matlab (via "export MATLAB_UNSET_STACKSIZE=1" on Linux machines)

[John]

This seems to have fixed an identical issue on openSUSE Tumbleweed. Thanks for doing the footwork for us!

(FWIW, with respect to the comment about unsupported distros, we've been using Matlab on openSUSE for at least seventeen years, and it's generally well-behaved)