Python 3.8.10 (default, Nov 22 2023, 10:22:35) [GCC 9.4.0] on linux Type "help", "copyright", "credits" or "license" for more information. >>> import nest Invalid MIT-MAGIC-COOKIE-1 key -- N E S T -- Copyright (C) 2004 The NEST Initiative Version: 3.7.0 Built: Apr 18 2024 04:47:21 This program is provided AS IS and comes with NO WARRANTY. See the file LICENSE for details. Problems or suggestions? Visit https://www.nest-simulator.org Type 'nest.help()' to find out more about NEST. /home/ilaria/.local/lib/python3.8/site-packages/h5py/__init__.py:36: UserWarning:h5py is running against HDF5 1.10.4 when it was built against 1.12.2, this may cause problems Warning! ***HDF5 library version mismatched error*** The HDF5 header files used to compile this application do not match the version used by the HDF5 library to which this application is linked. Data corruption or segmentation faults may occur if the application continues. This can happen when an application was compiled by one version of HDF5 but linked with a different version of static or shared HDF5 library. You should recompile the application or check your shared library related settings such as 'LD_LIBRARY_PATH'. You can, at your own risk, disable this warning by setting the environment variable 'HDF5_DISABLE_VERSION_CHECK' to a value of '1'. Setting it to 2 or higher will suppress the warning messages totally. Headers are 1.12.2, library is 1.10.4 SUMMARY OF THE HDF5 CONFIGURATION ================================= General Information: ------------------- HDF5 Version: 1.10.4 Configured on: Mon, 13 Apr 2020 12:15:08 +0000 Configured by: Debian Host system: x86_64-pc-linux-gnu Uname information: Debian Byte sex: little-endian Installation point: /usr Flavor name: serial Compiling Options: ------------------ Build Mode: production Debugging Symbols: no Asserts: no Profiling: no Optimization Level: high Linking Options: ---------------- Libraries: static, shared Statically Linked Executables: LDFLAGS: -Wl,-Bsymbolic-functions -Wl,-z,relro H5_LDFLAGS: -Wl,--version-script,$(top_srcdir)/debian/map_serial.ver AM_LDFLAGS: Extra libraries: -lpthread -lsz -lz -ldl -lm Archiver: ar AR_FLAGS: cr Ranlib: x86_64-linux-gnu-ranlib Languages: ---------- C: yes C Compiler: /usr/bin/gcc CPPFLAGS: -Wdate-time -D_FORTIFY_SOURCE=2 H5_CPPFLAGS: -D_GNU_SOURCE -D_POSIX_C_SOURCE=200112L -DNDEBUG -UH5_DEBUG_API AM_CPPFLAGS: C Flags: -g -O2 -fdebug-prefix-map=$(top_srcdir)=. -fstack-protector-strong -Wformat -Werror=format-security H5 C Flags: -std=c99 -pedantic -Wall -Wextra -Wbad-function-cast -Wc++-compat -Wcast-align -Wcast-qual -Wconversion -Wdeclaration-after-statement -Wdisabled-optimization -Wfloat-equal -Wformat=2 -Winit-self -Winvalid-pch -Wmissing-declarations -Wmissing-include-dirs -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wpacked -Wpointer-arith -Wredundant-decls -Wshadow -Wstrict-prototypes -Wswitch-default -Wswitch-enum -Wundef -Wunused-macros -Wunsafe-loop-optimizations -Wwrite-strings -finline-functions -s -Wno-inline -Wno-aggregate-return -Wno-missing-format-attribute -Wno-missing-noreturn -O AM C Flags: Shared C Library: yes Static C Library: yes Fortran: yes Fortran Compiler: /usr/bin/gfortran Fortran Flags: -g -O2 -fdebug-prefix-map=$(top_srcdir)=. -fstack-protector-strong H5 Fortran Flags: -pedantic -Wall -Wextra -Wunderflow -Wimplicit-interface -Wsurprising -Wno-c-binding-type -s -O2 AM Fortran Flags: Shared Fortran Library: yes Static Fortran Library: yes C++: yes C++ Compiler: /usr/bin/g++ C++ Flags: -g -O2 -fdebug-prefix-map=$(top_srcdir)=. -fstack-protector-strong -Wformat -Werror=format-security H5 C++ Flags: -pedantic -Wall -W -Wundef -Wshadow -Wpointer-arith -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Wredundant-decls -Winline -Wsign-promo -Woverloaded-virtual -Wold-style-cast -Weffc++ -Wreorder -Wnon-virtual-dtor -Wctor-dtor-privacy -Wabi -finline-functions -s -O AM C++ Flags: Shared C++ Library: yes Static C++ Library: yes Java: yes Java Compiler: /usr/bin/java (openjdk 11.0.7-ea 2020-04-14) Features: --------- Parallel HDF5: no Parallel Filtered Dataset Writes: no Large Parallel I/O: no High-level library: yes Threadsafety: yes Default API mapping: v18 With deprecated public symbols: yes I/O filters (external): deflate(zlib),szip(encoder) MPE: no Direct VFD: no dmalloc: no Packages w/ extra debug output: none API tracing: no Using memory checker: no Memory allocation sanity checks: no Metadata trace file: no Function stack tracing: no Strict file format checks: no Optimization instrumentation: no Bye... [enea:09911] *** Process received signal *** [enea:09911] Signal: Aborted (6) [enea:09911] Signal code: (-6) [enea:09911] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x43090)[0x7fc8fd122090] [enea:09911] [ 1] /lib/x86_64-linux-gnu/libc.so.6(gsignal+0xcb)[0x7fc8fd12200b] [enea:09911] [ 2] /lib/x86_64-linux-gnu/libc.so.6(abort+0x12b)[0x7fc8fd101859] [enea:09911] [ 3] /lib/x86_64-linux-gnu/libhdf5_serial.so.103(+0x3acc2)[0x7fc8f078bcc2] [enea:09911] [ 4] /home/ilaria/.local/lib/python3.8/site-packages/h5py/h5f.cpython-38-x86_64-linux-gnu.so(+0x7310)[0x7fc8c9bf1310] [enea:09911] [ 5] python3(PyModule_ExecDef+0x4c)[0x6a1b4c] [enea:09911] [ 6] python3[0x67aca3] [enea:09911] [ 7] python3[0x5a2544] [enea:09911] [ 8] python3(PyVectorcall_Call+0x58)[0x5d51d8] [enea:09911] [ 9] python3(_PyEval_EvalFrameDefault+0x6eb0)[0x54d9f0] [enea:09911] [10] python3(_PyEval_EvalCodeWithName+0x26a)[0x54552a] [enea:09911] [11] python3(_PyFunction_Vectorcall+0x393)[0x5d5a23] [enea:09911] [12] python3(_PyEval_EvalFrameDefault+0x5d69)[0x54c8a9] [enea:09911] [13] python3(_PyFunction_Vectorcall+0x1b6)[0x5d5846] [enea:09911] [14] python3(_PyEval_EvalFrameDefault+0x907)[0x547447] [enea:09911] [15] python3(_PyFunction_Vectorcall+0x1b6)[0x5d5846] [enea:09911] [16] python3(_PyEval_EvalFrameDefault+0x725)[0x547265] [enea:09911] [17] python3(_PyFunction_Vectorcall+0x1b6)[0x5d5846] [enea:09911] [18] python3(_PyEval_EvalFrameDefault+0x725)[0x547265] [enea:09911] [19] python3(_PyFunction_Vectorcall+0x1b6)[0x5d5846] [enea:09911] [20] python3[0x5d2c51] [enea:09911] [21] python3(_PyObject_CallMethodIdObjArgs+0x198)[0x5d30b8] [enea:09911] [22] python3(PyImport_ImportModuleLevelObject+0x822)[0x52d792] [enea:09911] [23] python3[0x4cc8e4] [enea:09911] [24] python3(PyCFunction_Call+0x59)[0x5d5499] [enea:09911] [25] python3(_PyEval_EvalFrameDefault+0x6eb0)[0x54d9f0] [enea:09911] [26] python3(_PyEval_EvalCodeWithName+0x26a)[0x54552a] [enea:09911] [27] python3(_PyFunction_Vectorcall+0x393)[0x5d5a23] [enea:09911] [28] python3(_PyEval_EvalFrameDefault+0x725)[0x547265] [enea:09911] [29] python3(_PyEval_EvalCodeWithName+0x26a)[0x54552a] [enea:09911] *** End of error message *** Aborted (core dumped)