Segmentation violation detected Error on matlab R2018b on Debian 10 while running mt_prep_snap tool StaMPS-4.1-beta

I'm trying to make insar time series with the matlab tool StaMPS-4.1-beta, launching the first command returns this error (the operating system is Debian 10, MATLAB R2018b):

fabio@unict:/media/fabio/Dati_1/project/INSAR_20150822$ mt_prep_snap 20150822 /media/fabio/Dati_1/project/INSAR_20150822 0.4 9 3 70 70

mt_prep_snap Andy Hooper, August 2017

Amplitude Dispersion Threshold: 0.4

Processing 9 patch(es) in range and 3 in azimuth

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

Segmentation violation detected at gio mag 06 16:36:58 2021 +0200

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

Configuration:

Crash Decoding : Disabled - No sandbox or build area path

Crash Mode : continue (default)

Default Encoding : UTF-8

Deployed : false

Desktop Environment : XFCE

GNU C Library : 2.28 stable

Graphics Driver : Unknown software

MATLAB Architecture : glnxa64

MATLAB Entitlement ID : 5218571

MATLAB Root : /usr/local/MATLAB/R2018b

MATLAB Version : 9.5.0.1586782 (R2018b) Update 8

OpenGL : software

Operating System : Debian GNU/Linux 10 (buster)

Process ID : 24930

Processor ID : x86 Family 143 Model 8 Stepping 2, AuthenticAMD

Session Key : ad05fc57-4088-46f8-ba9a-388c36d575de

Static TLS mitigation : Enabled: Full

Window System : No active display

Fault Count: 1

Abnormal termination

Register State (from fault):

RAX = 000000000000000b RBX = 00007f02b2963760

RCX = 787564642e62616c RDX = 00007f02b2963760

RSP = 00007f02b2963430 RBP = 00007f02b2963460

RSI = 0000000000000000 RDI = 00007f02b2963430

R8 = 0000000000000000 R9 = 0000000000000000

R10 = 0000000000000007 R11 = 00007f02db6d9200

R12 = 00007f02b2963530 R13 = 00007f02b2963ec0

R14 = 00007f02b2963530 R15 = 00007f02ac131a78

RIP = 00007f02d3ee1a22 EFL = 0000000000010206

CS = 0033 FS = 0000 GS = 0000

Stack Trace (from fault):

[ 0] 0x00007f02d3ee1a22 bin/glnxa64/libmwsettingscore.so+00973346 _ZNK8settings4core8Settings21getSettingsByFullNameERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE+00000018

[ 1] 0x00007f02b8a071e5 bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00725477

[ 2] 0x00007f02b89d70fb bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00528635

[ 3] 0x00007f02b89c0500 bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00435456

[ 4] 0x00007f02b89cceca bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00487114

[ 5] 0x00007f02b89c6eaa bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00462506

[ 6] 0x00007f02d8b76e75 bin/glnxa64/libmwms.so+02625141

[ 7] 0x00007f02b89c6b06 bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00461574

[ 8] 0x00007f02d9a2dc0d /usr/local/MATLAB/R2018b/bin/glnxa64/libmwboost_thread.so.1.65.1+00080909

[ 9] 0x00007f02d8e1ffa3 /lib/x86_64-linux-gnu/libpthread.so.0+00032675

[ 10] 0x00007f02da15f4cf /lib/x86_64-linux-gnu/libc.so.6+01021135 clone+00000063

[ 11] 0x0000000000000000 <unknown-module>+00000000

** This crash report has been saved to disk as /home/fabio/matlab_crash_dump.24930-1 **

MATLAB is exiting because of fatal error

Killed

opening /media/fabio/Dati_1/project/INSAR_20150822/rslc/20150412.rslc...

Segmentation fault

2934

2740

mt_extract_cands Andy Hooper, Jan 2007

Patch: PATCH_1

selpsc_patch /media/fabio/Dati_1/project/INSAR_20150822/selpsc.in patch.in pscands.1.ij pscands.1.da mean_amp.flt f 1

file name for zero amplitude PS: pscands.1.ij0

dispersion threshold = 0.4

width = 26413

number of amplitude files = 0

Segmentation fault

psclonlat /media/fabio/Dati_1/project/INSAR_20150822/psclonlat.in pscands.1.ij pscands.1.ll

opening pscands.1.ij...

Error opening file pscands.1.ij

pscdem /media/fabio/Dati_1/project/INSAR_20150822/pscdem.in pscands.1.ij pscands.1.hgt

opening pscands.1.ij...

pscdem: Error opening file pscands.1.ij

pscphase /media/fabio/Dati_1/project/INSAR_20150822/pscphase.in pscands.1.ij pscands.1.ph

opening pscands.1.ij...

Error opening file pscands.1.ij

Patch: PATCH_27

selpsc_patch /media/fabio/Dati_1/project/INSAR_20150822/selpsc.in patch.in pscands.1.ij pscands.1.da mean_amp.flt f 1

file name for zero amplitude PS: pscands.1.ij0

dispersion threshold = 0.4

width = 26413

number of amplitude files = 0

Segmentation fault

psclonlat /media/fabio/Dati_1/project/INSAR_20150822/psclonlat.in pscands.1.ij pscands.1.ll

opening pscands.1.ij...

Error opening file pscands.1.ij

pscdem /media/fabio/Dati_1/project/INSAR_20150822/pscdem.in pscands.1.ij pscands.1.hgt

opening pscands.1.ij...

pscdem: Error opening file pscands.1.ij

pscphase /media/fabio/Dati_1/project/INSAR_20150822/pscphase.in pscands.1.ij pscands.1.ph

opening pscands.1.ij...

Error opening file pscands.1.ij

The crash report opened by MATLAB below:

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

Segmentation violation detected at gio mag 06 16:36:58 2021 +0200

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

Configuration:

Crash Decoding : Disabled - No sandbox or build area path

Crash Mode : continue (default)

Default Encoding : UTF-8

Deployed : false

Desktop Environment : XFCE

GNU C Library : 2.28 stable

Graphics Driver : Unknown software

MATLAB Architecture : glnxa64

MATLAB Entitlement ID : 5218571

MATLAB Root : /usr/local/MATLAB/R2018b

MATLAB Version : 9.5.0.1586782 (R2018b) Update 8

OpenGL : software

Operating System : Debian GNU/Linux 10 (buster)

Process ID : 24930

Processor ID : x86 Family 143 Model 8 Stepping 2, AuthenticAMD

Session Key : ad05fc57-4088-46f8-ba9a-388c36d575de

Static TLS mitigation : Enabled: Full

Window System : No active display

Fault Count: 1

Abnormal termination

Register State (from fault):

RAX = 000000000000000b RBX = 00007f02b2963760

RCX = 787564642e62616c RDX = 00007f02b2963760

RSP = 00007f02b2963430 RBP = 00007f02b2963460

RSI = 0000000000000000 RDI = 00007f02b2963430

R8 = 0000000000000000 R9 = 0000000000000000

R10 = 0000000000000007 R11 = 00007f02db6d9200

R12 = 00007f02b2963530 R13 = 00007f02b2963ec0

R14 = 00007f02b2963530 R15 = 00007f02ac131a78

RIP = 00007f02d3ee1a22 EFL = 0000000000010206

CS = 0033 FS = 0000 GS = 0000

Stack Trace (from fault):

[ 0] 0x00007f02d3ee1a22 bin/glnxa64/libmwsettingscore.so+00973346 _ZNK8settings4core8Settings21getSettingsByFullNameERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE+00000018

[ 1] 0x00007f02b8a071e5 bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00725477

[ 2] 0x00007f02b89d70fb bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00528635

[ 3] 0x00007f02b89c0500 bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00435456

[ 4] 0x00007f02b89cceca bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00487114

[ 5] 0x00007f02b89c6eaa bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00462506

[ 6] 0x00007f02d8b76e75 bin/glnxa64/libmwms.so+02625141

[ 7] 0x00007f02b89c6b06 bin/glnxa64/ddux/ddux_impl/mwddux_impl.so+00461574

[ 8] 0x00007f02d9a2dc0d /usr/local/MATLAB/R2018b/bin/glnxa64/libmwboost_thread.so.1.65.1+00080909

[ 9] 0x00007f02d8e1ffa3 /lib/x86_64-linux-gnu/libpthread.so.0+00032675

[ 10] 0x00007f02da15f4cf /lib/x86_64-linux-gnu/libc.so.6+01021135 clone+00000063

[ 11] 0x0000000000000000 <unknown-module>+00000000

[sadia sadiq]

Hi! how did you solve your problem? or is it still unsolved?

[Wang Jun Wang]

Hi,I also meet this problem? Did you have solve it?

Just like:

pscphase /media/fabio/Dati_1/project/INSAR_20150822/pscphase.in pscands.1.ij pscands.1.ph

opening pscands.1.ij...

Error opening file pscands.1.ij

[li xin]

Hi,I also meet this problem? Did you have solve it? Just like: pscphase /media/fabio/Dati_1/project/INSAR_20150822/pscphase.in pscands.1.ij pscands.1.ph opening pscands.1.ij... Error opening file pscands.1.ij

Answer 1

[Pratik]

Hi Fabio,

From what I can understand, there is a crash and Segmentation Fault (core dumped) error during mt_prep_snap.

The reason behind this crash and error might be the compiler version. StaMPS has to be compiled with gcc-7 to fix the issue.

Please refer to the following post for more information about the issue and workaround:

forum.step.esa.int/t/segmentation-fault-core-dumped-error-during-mt-prep-snap/15615/17

I Hope this helps!