Matlab crashing when calling a python function with python external library imports

Hello,

I have a python file containing several functions which I would like to call from within MATLAB. I can call them without a problem from within the MATLAB console, however, if I would like to call the same functions from within a MATLAB script, it crashes giving me the following error:

Configuration:
  Crash Decoding           : Disabled - No sandbox or build area path
  Crash Mode               : continue (default)
  Default Encoding         : UTF-8
  Deployed                 : false
  GNU C Library            : 2.27 stable
  Graphics Driver          : Unknown software 
  Java Version             : Java 1.8.0_144-b01 with Oracle Corporation Java HotSpot(TM) 64-Bit Server VM mixed mode
  MATLAB Architecture      : glnxa64
  MATLAB Entitlement ID    : 870147
  MATLAB Root              : /opt/matlab.2018a
  MATLAB Version           : 9.4.0.813654 (R2018a)
  OpenGL                   : software
  Operating System         : Ubuntu 18.04.1 LTS
  Process ID               : 4304
  Processor ID             : x86 Family 6 Model 58 Stepping 9, GenuineIntel
  Session Key              : 4ec640f1-2636-4efc-abb2-7539d403518f
  Static TLS mitigation    : Disabled: Unnecessary 1
  Window System            : The X.Org Foundation (11906000), display localhost:11.0

Fault Count: 1


Abnormal termination

Register State (from fault):
  RAX = 0000000000000000  RBX = 00007f9be1111a70
  RCX = 00007f9c011f9e97  RDX = 0000000000000000
  RSP = 00007f9be1111800  RBP = 00007f9be1111b70
  RSI = 00007f9be1111800  RDI = 0000000000000002

   R8 = 0000000000000000   R9 = 00007f9be1111800
  R10 = 0000000000000008  R11 = 0000000000000246
  R12 = 00007f9be1111a70  R13 = 0000000000001000
  R14 = 0000000000000000  R15 = 0000000000000030

  RIP = 00007f9c011f9e97  EFL = 0000000000000246

   CS = 0033   FS = 0000   GS = 0000

Stack Trace (from fault):
[  0] 0x00007f9c011f9e97                    /lib/x86_64-linux-gnu/libc.so.6+00257687 gsignal+00000199
[  1] 0x00007f9c011fb801                    /lib/x86_64-linux-gnu/libc.so.6+00264193 abort+00000321
[  2] 0x00007f9c01244897                    /lib/x86_64-linux-gnu/libc.so.6+00563351
[  3] 0x00007f9c0124b90a                    /lib/x86_64-linux-gnu/libc.so.6+00592138
[  4] 0x00007f9c01252e1c                    /lib/x86_64-linux-gnu/libc.so.6+00622108 cfree+00001228
[  5] 0x00007f9a3308945c         /usr/lib/x86_64-linux-gnu/libcrypto.so.1.1+01299548 EVP_MD_CTX_reset+00000172
[  6] 0x00007f9a33089489         /usr/lib/x86_64-linux-gnu/libcrypto.so.1.1+01299593 EVP_MD_CTX_free+00000009
[  7] 0x00007f9a333c6b2a /usr/lib/python3.6/lib-dynload/_hashlib.cpython-36m-x86_64-linux-gnu.so+00011050
[  8] 0x00007f9a485df65c     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01570396 _PyEval_EvalFrameDefault+00009356
[  9] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 10] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 11] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 12] 0x00007f9a485db63f     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01553983
[ 13] 0x00007f9a485dc0fe     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556734 PyEval_EvalCodeEx+00000062
[ 14] 0x00007f9a485dcfdb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01560539 PyEval_EvalCode+00000027
[ 15] 0x00007f9a485e827d     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01606269
[ 16] 0x00007f9a48673c11     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02178065 PyCFunction_Call+00000193
[ 17] 0x00007f9a485e4b10     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01592080 _PyEval_EvalFrameDefault+00031040
[ 18] 0x00007f9a485db63f     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01553983
[ 19] 0x00007f9a485dbd1e     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01555742
[ 20] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 21] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 22] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 23] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 24] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 25] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 26] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 27] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 28] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 29] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 30] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 31] 0x00007f9a485dba43     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01555011 _PyFunction_FastCallDict+00000707
[ 32] 0x00007f9a486c8b41     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02526017 _PyObject_FastCallDict+00000305
[ 33] 0x00007f9a486c8ea6     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02526886 _PyObject_CallMethodIdObjArgs+00000230
[ 34] 0x00007f9a484d0b4c     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+00461644 PyImport_ImportModuleLevelObject+00001116
[ 35] 0x00007f9a485e412a     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01589546 _PyEval_EvalFrameDefault+00028506
[ 36] 0x00007f9a485db63f     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01553983
[ 37] 0x00007f9a485dc0fe     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556734 PyEval_EvalCodeEx+00000062
[ 38] 0x00007f9a485dcfdb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01560539 PyEval_EvalCode+00000027
[ 39] 0x00007f9a485e827d     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01606269
[ 40] 0x00007f9a48673c11     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02178065 PyCFunction_Call+00000193
[ 41] 0x00007f9a485e4b10     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01592080 _PyEval_EvalFrameDefault+00031040
[ 42] 0x00007f9a485db63f     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01553983
[ 43] 0x00007f9a485dbd1e     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01555742
[ 44] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 45] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 46] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 47] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 48] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 49] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 50] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 51] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 52] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 53] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 54] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 55] 0x00007f9a485dba43     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01555011 _PyFunction_FastCallDict+00000707
[ 56] 0x00007f9a486c8b41     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02526017 _PyObject_FastCallDict+00000305
[ 57] 0x00007f9a486c8ea6     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02526886 _PyObject_CallMethodIdObjArgs+00000230
[ 58] 0x00007f9a484d0b4c     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+00461644 PyImport_ImportModuleLevelObject+00001116
[ 59] 0x00007f9a485e412a     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01589546 _PyEval_EvalFrameDefault+00028506
[ 60] 0x00007f9a485db63f     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01553983
[ 61] 0x00007f9a485dc0fe     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556734 PyEval_EvalCodeEx+00000062
[ 62] 0x00007f9a485dcfdb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01560539 PyEval_EvalCode+00000027
[ 63] 0x00007f9a485e827d     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01606269
[ 64] 0x00007f9a48673c11     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02178065 PyCFunction_Call+00000193
[ 65] 0x00007f9a485e4b10     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01592080 _PyEval_EvalFrameDefault+00031040
[ 66] 0x00007f9a485db63f     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01553983
[ 67] 0x00007f9a485dbd1e     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01555742
[ 68] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 69] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 70] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 71] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 72] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 73] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 74] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 75] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 76] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 77] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 78] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 79] 0x00007f9a485dba43     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01555011 _PyFunction_FastCallDict+00000707
[ 80] 0x00007f9a486c8b41     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02526017 _PyObject_FastCallDict+00000305
[ 81] 0x00007f9a486c8ea6     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02526886 _PyObject_CallMethodIdObjArgs+00000230
[ 82] 0x00007f9a484d0b4c     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+00461644 PyImport_ImportModuleLevelObject+00001116
[ 83] 0x00007f9a485e412a     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01589546 _PyEval_EvalFrameDefault+00028506
[ 84] 0x00007f9a485db63f     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01553983
[ 85] 0x00007f9a485dc0fe     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556734 PyEval_EvalCodeEx+00000062
[ 86] 0x00007f9a485dcfdb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01560539 PyEval_EvalCode+00000027
[ 87] 0x00007f9a485e827d     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01606269
[ 88] 0x00007f9a48673c11     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02178065 PyCFunction_Call+00000193
[ 89] 0x00007f9a485e4b10     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01592080 _PyEval_EvalFrameDefault+00031040
[ 90] 0x00007f9a485db63f     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01553983
[ 91] 0x00007f9a485dbd1e     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01555742
[ 92] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 93] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 94] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 95] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 96] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[ 97] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[ 98] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[ 99] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[100] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[101] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[102] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[103] 0x00007f9a485dba43     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01555011 _PyFunction_FastCallDict+00000707
[104] 0x00007f9a486c8b41     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02526017 _PyObject_FastCallDict+00000305
[105] 0x00007f9a486c8ea6     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02526886 _PyObject_CallMethodIdObjArgs+00000230
[106] 0x00007f9a484d0b4c     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+00461644 PyImport_ImportModuleLevelObject+00001116
[107] 0x00007f9a485e412a     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01589546 _PyEval_EvalFrameDefault+00028506
[108] 0x00007f9a485db63f     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01553983
[109] 0x00007f9a485dc0fe     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556734 PyEval_EvalCodeEx+00000062
[110] 0x00007f9a485dcfdb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01560539 PyEval_EvalCode+00000027
[111] 0x00007f9a485e827d     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01606269
[112] 0x00007f9a48673c11     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+02178065 PyCFunction_Call+00000193
[113] 0x00007f9a485e4b10     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01592080 _PyEval_EvalFrameDefault+00031040
[114] 0x00007f9a485db63f     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01553983
[115] 0x00007f9a485dbd1e     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01555742
[116] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[117] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[118] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[119] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[120] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[121] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[122] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[123] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[124] 0x00007f9a485dbeeb     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01556203
[125] 0x00007f9a485e2092     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01581202 _PyEval_EvalFrameDefault+00020162
[126] 0x00007f9a485da4a3     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01549475
[127] 0x00007f9a485dba43     /usr/lib/x86_64-linux-gnu/libpython3.6m.so.1.0+01555011 _PyFunction_FastCallDict+00000707

In the .py file, there are two libraries which are being imported, as soon as I remove them the problem goes away.

Answer 1

[Harshita Gupta]

Your question looks similar to this question. Try following the steps mentioned in the post :

https://www.mathworks.com/matlabcentral/answers/265247-importing-custom-python-module-fails#answer_207682

Hope it helps!

[kinblu]

It is similar indeed, but unfortunately I could not figure it out of how to find relevant information there and use them to fix my problem...