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.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)).

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

————————————————
MATLAB Log File
————————————————

Fault Count: 1

Abnormal termination:
abort()

Current Thread: ‘MCR 0 interpret’ id 139753454302912

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

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. 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)).

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

————————————————
MATLAB Log File
————————————————

Fault Count: 1

Abnormal termination:
abort()

Current Thread: ‘MCR 0 interpret’ id 139753454302912

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

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