MATLAB Crashes when trying to run "svmtrain" on CentOS

I'm trying to run some feature selection and classification models using libsvm on my university's supercomputer. I haven't had issues in the past running these functions and libsvm has been properly made on my system. But recently, the code will start running and then crash once it tries to use "svmtrain". It generates the attached segment violation and crash dump. I've tried re-compiling libsvm, running on a different cluster, increasing memory, but I still get this report. Am I diagnosing the problem right or is there something in the crash report that clears it up? The error report generated is the following.

--------------------------------------------------------------------------------

Segmentation violation detected at 2024-05-02 11:59:09 -0500

--------------------------------------------------------------------------------

Configuration:

Crash Decoding : Disabled - No sandbox or build area path

Crash Mode : continue (default)

Default Encoding : US-ASCII

Deployed : false

GNU C Library : 2.17 stable

Graphics Driver : Uninitialized software

Graphics card 1 : 0x102b ( 0x102b ) 0x538 Version 0.0.0.0 (0-0-0)

Interpreter 0 : Executing request: 696F6C69622F494F436D64526571756573742E637070

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 : 5510488

MATLAB Root : /common/software/install/manual/matlab/R2023b

MATLAB Version : 23.2.0.2515942 (R2023b) Update 7

OpenGL : software

Operating System : "CentOS Linux release 7.9.2009 (Core)"

Process ID : 444755

Processor ID : x86 Family 25 Model 1 Stepping 1, AuthenticAMD

Session Key : 75b65d13-e558-4b4a-ba21-29ba6392eb75

Static TLS mitigation : Disabled: Unnecessary

Window System : No active display

Fault Count: 1

Abnormal termination:

Segmentation violation

Current Thread: 'MCR 0 interpret' id 139656632989440

Register State (from fault):

RAX = 0000000000000000 RBX = 0000000000000000

RCX = 00007f039ea87a00 RDX = 00000000ffffffff

RSP = 00007f0457ff8bd0 RBP = 00007f0457ff8c60

RSI = 00007f044c000030 RDI = 00007f044c000020

R8 = 00007f039ea78240 R9 = 00007f039ea87ad0

R10 = 0000000000000002 R11 = 00007f04f66fcae0

R12 = 00007f039ea87ab0 R13 = 0000000000000000

R14 = 00007f039ea87a90 R15 = 00007f039ea84510

RIP = 00007f03512e080f EFL = 0000000000010202

CS = 0033 FS = 0000 GS = 0000

Stack Trace (from fault):

[ 0] 0x00007f03512e080f /home/ME/Matlab_tools/Code_Bank/Classification_Packages/libsvm-3.17/matlab/svmpredict.mexa64+00030735

[ 1] 0x00007f03512dbbc7 /home/ME/Matlab_tools/Code_Bank/Classification_Packages/libsvm-3.17/matlab/svmpredict.mexa64+00011207

[ 2] 0x00007f03512dc2ad /home/ME/Matlab_tools/Code_Bank/Classification_Packages/libsvm-3.17/matlab/svmpredict.mexa64+00012973 mexFunction+00000285

[ 3] 0x00007f04ec284a1f /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmex.so+00956959

[ 4] 0x00007f04ec284a97 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmex.so+00957079

[ 5] 0x00007f04ec284b07 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmex.so+00957191

[ 6] 0x00007f04ec2860ba /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmex.so+00962746

[ 7] 0x00007f04ec271a70 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmex.so+00879216

[ 8] 0x00007f04eca66976 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_dispatcher.so+01579382 _ZN8Mfh_file20dispatch_file_commonEMS_FviPP11mxArray_tagiS2_EiS2_iS2_+00000166

[ 9] 0x00007f04eca67a6c /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_dispatcher.so+01583724

[ 10] 0x00007f04eca67dae /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_dispatcher.so+01584558 _ZN8Mfh_file8dispatchEiPSt10unique_ptrI11mxArray_tagN6matrix6detail17mxDestroy_deleterEEiPPS1_+00000030

[ 11] 0x00007f04dfd27b32 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwlxemainservices.so+02550578

[ 12] 0x00007f04dfd27e34 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwlxemainservices.so+02551348

[ 13] 0x00007f04db0ff55f /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+11314527

[ 14] 0x00007f04db0f1200 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+11256320

[ 15] 0x00007f04db081992 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+10799506

[ 16] 0x00007f04dadaed20 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+07839008

[ 17] 0x00007f04dadb1064 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+07848036

[ 18] 0x00007f04dadae589 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+07837065

[ 19] 0x00007f04dadbfe5f /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+07908959

[ 20] 0x00007f04dadc08b9 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+07911609

[ 21] 0x00007f04dadae394 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+07836564

[ 22] 0x00007f04dadae496 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+07836822

[ 23] 0x00007f04daef6e3c /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+09182780

[ 24] 0x00007f04daefafa1 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwm_lxe.so+09199521

[ 25] 0x00007f04dfeae118 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwlxemainservices.so+04149528

[ 26] 0x00007f04dfd8979f /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwlxemainservices.so+02951071

[ 27] 0x00007f04dfd90937 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwlxemainservices.so+02980151

[ 28] 0x00007f04dfe50f65 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwlxemainservices.so+03768165

[ 29] 0x00007f04dfe513ce /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwlxemainservices.so+03769294

[ 30] 0x00007f04ecd5b322 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwiqm.so+01028898 _ZN3iqm14UserEvalPlugin7executeEP15inWorkSpace_tag+00000754

[ 31] 0x00007f04ecd33f20 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwiqm.so+00868128

[ 32] 0x00007f04ecd4188b /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwiqm.so+00923787

[ 33] 0x00007f04eccff92b /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwiqm.so+00653611

[ 34] 0x00007f04ec359b09 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwbridge.so+00498441

[ 35] 0x00007f04ec359f93 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwbridge.so+00499603

[ 36] 0x00007f04ec375702 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwbridge.so+00612098 _Z22mnGetCommandLineBufferbRbN7mwboost8optionalIKP15inWorkSpace_tagEEbRKNS0_9function2IN6mlutil14cmddistributor17inExecutionStatusERKNSt7__cxx1112basic_stringIDsSt11char_traitsIDsESaIDsEEES4_EE+00000210

[ 37] 0x00007f04ec375a9c /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwbridge.so+00613020 _Z8mnParserv+00000572

[ 38] 0x00007f04ecbcc57f /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwmcr.so+00890239

[ 39] 0x00007f04f94f65b4 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwmvm.so+03360180 _ZN14cmddistributor15PackagedTaskIIP10invokeFuncIN7mwboost8functionIFvvEEEEENS2_10shared_ptrINS2_6futureIDTclfp_EEEEEERKT_+00000068

[ 40] 0x00007f04f94f6869 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwmvm.so+03360873 _ZNSt17_Function_handlerIFN7mwboost3anyEvEZN14cmddistributor15PackagedTaskIIP10createFuncINS0_8functionIFvvEEEEESt8functionIS2_ET_EUlvE_E9_M_invokeERKSt9_Any_data+00000025

[ 41] 0x00007f04ecd5539d /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwiqm.so+01004445 _ZN3iqm18PackagedTaskPlugin7executeEP15inWorkSpace_tag+00000093

[ 42] 0x00007f04ecbc81a5 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwmcr.so+00872869

[ 43] 0x00007f04ecd33f20 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwiqm.so+00868128

[ 44] 0x00007f04eccfdd92 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwiqm.so+00646546

[ 45] 0x00007f04eccfe6e3 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwiqm.so+00648931

[ 46] 0x00007f04ecbb765e /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwmcr.so+00804446

[ 47] 0x00007f04ecbb7255 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwmcr.so+00803413

[ 48] 0x00007f04ecbb74ad /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwmcr.so+00804013

[ 49] 0x00007f04f7f65277 /common/software/install/manual/matlab/R2023b/bin/glnxa64/libmwboost_thread.so.1.78.0+00045687

[ 50] 0x00007f04f89c1ea5 /lib64/libpthread.so.0+00032421

[ 51] 0x00007f04f84fab0d /lib64/libc.so.6+01043213 clone+00000109

This error was detected while a MEX-file was running. If the MEX-file

is not an official MathWorks function, please examine its source code

for errors. Please consult the External Interfaces Guide for information

on debugging MEX-files.

Answer 1

[Ganapathi Subramanian R]

Hi Thomas,

I understand that you are facing MATLAB crash while running "svmtrain" on CentOS.

After reviewing the crash log, I suspect that the issue you are facing is due to 'svmpredict' MEX file.

For a more detailed investigation, I highly recommend you to refer the following documentation.

https://www.mathworks.com/matlabcentral/answers/203729-how-do-i-identify-the-mex-function-that-caused-matlab-to-crash

This will help you in identifying the root cause of the issue.

Additionally, it is important to note that CentOS is not supported by MATLAB. This compatibility issue could also be contributing to the issue you are facing. I suggest you to move to a system that meets the requirements outlined in the MATLAB documentation for Linux systems.

https://www.mathworks.com/content/dam/mathworks/mathworks-dot-com/support/sysreq/files/system-requirements-release-2023b-linux.pdf

I hope this helps.

Thanks