Crash in gmx::AtomsBuilder::addAtom(t_atoms const&, int)

Similar reports
Problem #802810
Component
gromacs
Last affected version
0:2022.3-3.fc38
Executable
/usr/bin/gmx
Error name
SIGSEGV 11
First occurrence
2025-11-07
Last occurrence
2026-01-16
Unique reports
3
Quality
-18

Statistics

Operating system Unique / Total count
Fedora 38 3 / 9
Operating system Count
Fedora 38 9
Architecture Count
x86_64 9
Related packages Count
flexiblas-netlib 9
 0:3.4.2-1.fc38 9
libquadmath 9
 0:13.2.1-7.fc38 9
gromacs 9
 0:2022.3-3.fc38 9
Show more… (3)
libgfortran 9
 0:13.2.1-7.fc38 9
openblas-openmp 9
 0:0.3.21-4.fc38 9
libxcb 9
 0:1.13.1-11.fc38 9

Packages names with count less than the total count of reports are most probably not the cause of the problem.

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Backtrace

Frame # Function Binary Source or offset Line
1
gmx::AtomsBuilder::addAtom(t_atoms const&, int)
/lib64/libgromacs.so.7 0x591cbc
Build id: 3c60acbb0ee16993a17d8bc889cf8c5d36465ff2 		-
2
gmx::AtomsRemover::removeMarkedAtoms(t_atoms*) const
/lib64/libgromacs.so.7 0x592035
Build id: 3c60acbb0ee16993a17d8bc889cf8c5d36465ff2 		-
3
removeSolventBoxOverlap(t_atoms*, std::vector<gmx::BasicVector<float>, std::allocator<gmx::BasicVector<float> > >*, std::vector<gmx::BasicVector<float>, std::allocator<gmx::BasicVector<float> > >*, std::vector<float, std::allocator<float> >*, t_pbc const&)
/lib64/libgromacs.so.7 0x80846e
Build id: 3c60acbb0ee16993a17d8bc889cf8c5d36465ff2 		-
4
gmx_solvate(int, char**)
/lib64/libgromacs.so.7 0x80aa86
Build id: 3c60acbb0ee16993a17d8bc889cf8c5d36465ff2 		-
5
gmx::CommandLineModuleManager::run(int, char**)
/lib64/libgromacs.so.7 0x4c808e
Build id: 3c60acbb0ee16993a17d8bc889cf8c5d36465ff2 		-
6
main
/usr/bin/gmx 0xb07a
Build id: 697336e6cfd07f97c9f77218a85610acc89386a2 		-
7
__libc_start_call_main
/lib64/libc.so.6 0x27b8a
Build id: 9148cab1b932d44ef70e306e9c02ee38d06cad51 		-
8
__libc_start_main@@GLIBC_2.34
/lib64/libc.so.6 0x27c4b
Build id: 9148cab1b932d44ef70e306e9c02ee38d06cad51 		-
9
_start
/usr/bin/gmx 0xb185
Build id: 697336e6cfd07f97c9f77218a85610acc89386a2 		-