[gmx-users] Segmentation fault, core dumped error

Neena Susan Eappen neena.susaneappen at mail.utoronto.ca
Fri May 24 14:40:40 CEST 2019

Hello gromacs users,

I got an error message when I used gmx hbond command: Segmentation fault, core dumped. Shown below is my gmx version details (if that can point to my problem). Any insight would be appreciated.

GROMACS version:        2018.4
Precision:      single
Memory model:   64 bit
MPI library:    thread_mpi
OpenMP support: enabled (GMX_OPENMP_MAX_THREADS = 64)
GPU support:    disabled
SIMD instructions:      AVX2_256
FFT library:    fftw-3.3.8-sse2-avx-avx2-avx2_128-avx512
RDTSCP usage:   enabled
TNG support:    enabled
Hwloc support:  disabled
Tracing support:        disabled
Built on:       2019-01-12 0:35
Built by:       name at HP-PC [CMAKE]<mailto:name at HP-PC%20[CMAKE]>
Build OS/arch:  Linux 4.4.0-17134-Microsoft x86_64
Build CPU vendor:       Intel
Build CPU brand:        Intel(R) Core(TM) i3-5010U CPU @ 2.10GHz
Build CPU family:       6   Model: 61   Stepping: 4
Build CPU features:     aes apic avx avx2 clfsh cmov cx8 cx16 f16c fma htt intel lahf mmx msr nonstop_tsc pcid pclmuldq pdcm pdpe1gb popcnt pse rdrnd rdtscp sse2 sse3 sse4.1 sse4.2 ssse3 tdt x2apic
C compiler:     /usr/bin/cc GNU 7.3.0
C compiler flags:       march=core-AVX2     -O3 -DNDEBUG -funroll-all-loops -fexcess-precision=fast
C++ compiler:   /usr/bin/c++ GNU 7.3.0
C++ compiler flags:     -march=core-avx2    -std=c++11   -O3 -DNDEBUG -funroll-all-loops -fexcess-precision=fast

Thank you,

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