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Segfault in REPL when importing a library #707
Description
Activity
I noticed that when using OhMyREPL I do not get a segfault. Is the bug in REPL?
I believe this is now fixed and released - please try with PythonCall 0.9.29.
I am sorry to report that it still segfaults when hitting after period (.)...
$ julia --project=@temp _ _ _ _(_)_ | Documentation: https://docs.julialang.org (_) | (_) (_) | _ _ _| |_ __ _ | Type "?" for help, "]?" for Pkg help. | | | | | | |/ _` | | | | |_| | | | (_| | | Version 1.12.1 (2025-10-17) _/ |\__'_|_|_|\__'_| | Official https://julialang.org release |__/ | (jl_KolX4u) pkg> add PythonCall Resolving package versions... Updating `/tmp/jl_KolX4u/Project.toml` [6099a3de] + PythonCall v0.9.29 Updating `/tmp/jl_KolX4u/Manifest.toml` [992eb4ea] + CondaPkg v0.2.33 [9a962f9c] + DataAPI v1.16.0 [e2d170a0] + DataValueInterfaces v1.0.0 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [0f8b85d8] + JSON3 v1.14.3 [1914dd2f] + MacroTools v0.5.16 [0b3b1443] + MicroMamba v0.1.14 [bac558e1] + OrderedCollections v1.8.1 [69de0a69] + Parsers v2.8.3 [fa939f87] + Pidfile v1.3.0 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.0 [6099a3de] + PythonCall v0.9.29 [6c6a2e73] + Scratch v1.3.0 [856f2bd8] + StructTypes v1.11.0 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [e17b2a0c] + UnsafePointers v1.0.0 ⌅ [f8abcde7] + micromamba_jll v1.5.12+0 [4d7b5844] + pixi_jll v0.41.3+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [f43a241f] + Downloads v1.6.0 [7b1f6079] + FileWatching v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.12.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [deac9b47] + LibCURL_jll v8.11.1+1 [e37daf67] + LibGit2_jll v1.9.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.5.20 [458c3c95] + OpenSSL_jll v3.5.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850ede] + nghttp2_jll v1.64.0+1 [3f19e933] + p7zip_jll v17.5.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` julia> using PythonCall CondaPkg Found dependencies: /home/kjwiik/.julia/packages/PythonCall/Ds20G/CondaPkg.toml CondaPkg Found dependencies: /home/kjwiik/.julia/packages/CondaPkg/0UqYV/CondaPkg.toml CondaPkg Resolving changes + libstdcxx + libstdcxx-ng + openssl + python CondaPkg Initialising pixi │ /home/kjwiik/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ init │ --format pixi └ /tmp/jl_KolX4u/.CondaPkg ✔ Created /tmp/jl_KolX4u/.CondaPkg/pixi.toml CondaPkg Wrote /tmp/jl_KolX4u/.CondaPkg/pixi.toml │ [dependencies] │ openssl = ">=3, <3.6" │ libstdcxx = ">=3.4,<15.0" │ libstdcxx-ng = ">=3.4,<15.0" │ │ [dependencies.python] │ channel = "conda-forge" │ build = "*cp*" │ version = ">=3.10,<4" │ │ [project] │ name = ".CondaPkg" │ platforms = ["linux-64"] │ channels = ["conda-forge"] │ channel-priority = "strict" └ description = "automatically generated by CondaPkg.jl" CondaPkg Installing packages │ /home/kjwiik/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ install └ --manifest-path /tmp/jl_KolX4u/.CondaPkg/pixi.toml ✔ The default environment has been installed. (jl_KolX4u) pkg> conda add scikit-rf CondaPkg Found dependencies: /tmp/jl_KolX4u/CondaPkg.toml CondaPkg Found dependencies: /home/kjwiik/.julia/packages/PythonCall/Ds20G/CondaPkg.toml CondaPkg Found dependencies: /home/kjwiik/.julia/packages/CondaPkg/0UqYV/CondaPkg.toml CondaPkg Resolving changes + scikit-rf CondaPkg Initialising pixi │ /home/kjwiik/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ init │ --format pixi └ /tmp/jl_KolX4u/.CondaPkg ✔ Created /tmp/jl_KolX4u/.CondaPkg/pixi.toml CondaPkg Wrote /tmp/jl_KolX4u/.CondaPkg/pixi.toml │ [dependencies] │ openssl = ">=3, <3.6" │ libstdcxx = ">=3.4,<15.0" │ libstdcxx-ng = ">=3.4,<15.0" │ scikit-rf = "*" │ │ [dependencies.python] │ channel = "conda-forge" │ build = "*cp*" │ version = ">=3.10,<4" │ │ [project] │ name = ".CondaPkg" │ platforms = ["linux-64"] │ channels = ["conda-forge"] │ channel-priority = "strict" └ description = "automatically generated by CondaPkg.jl" CondaPkg Installing packages │ /home/kjwiik/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ install └ --manifest-path /tmp/jl_KolX4u/.CondaPkg/pixi.toml ✔ The default environment has been installed. julia> using PythonCall julia> rf = pyimport("skrf") Python: <module 'skrf' from '/tmp/jl_KolX4u/.CondaPkg/.pixi/envs/default/lib/python3.14/site-packages/skrf/__init__.py'> julia> rf.Fatal Python error: _Py_CheckRecursiveCall: Unrecoverable stack overflow (used -598662 kB) while calling a Python object Python runtime state: initialized Current thread 0x00007b4bdaa1e140 [julia] (most recent call first): <no Python frame> Extension modules: numpy._core._multiarray_umath, numpy.linalg._umath_linalg, scipy._lib._ccallback_c, scipy.linalg._fblas, scipy.linalg._flapack, _cyutility, scipy._cyutility, scipy.linalg.cython_lapack, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._pcg64, numpy.random._mt19937, numpy.random._generator, numpy.random._philox, numpy.random._sfc64, numpy.random.mtrand, scipy.linalg._cythonized_array_utils, scipy.linalg._solve_toeplitz, scipy.linalg._decomp_lu_cython, scipy.linalg._matfuncs_schur_sqrtm, scipy.linalg._matfuncs_expm, scipy.linalg._linalg_pythran, scipy.linalg.cython_blas, scipy.linalg._decomp_update, scipy.sparse._sparsetools, _csparsetools, scipy.sparse._csparsetools, scipy.sparse.linalg._dsolve._superlu, scipy.sparse.linalg._eigen.arpack._arpack, scipy.sparse.linalg._propack._spropack, scipy.sparse.linalg._propack._dpropack, scipy.sparse.linalg._propack._cpropack, scipy.sparse.linalg._propack._zpropack, scipy.optimize._group_columns, scipy._lib.messagestream, scipy.optimize._trlib._trlib, scipy.optimize._lbfgsb, _moduleTNC, scipy.optimize._moduleTNC, scipy.optimize._slsqplib, scipy.optimize._minpack, scipy.optimize._lsq.givens_elimination, scipy.optimize._zeros, scipy._lib._uarray._uarray, scipy.special._ufuncs_cxx, scipy.special._ellip_harm_2, scipy.special._special_ufuncs, scipy.special._gufuncs, scipy.special._ufuncs, scipy.special._specfun, scipy.special._comb, scipy.linalg._decomp_interpolative, scipy.optimize._bglu_dense, scipy.optimize._lsap, scipy.spatial._ckdtree, scipy.spatial._qhull, scipy.spatial._voronoi, scipy.spatial._hausdorff, scipy.spatial._distance_wrap, scipy.spatial.transform._rotation, scipy.spatial.transform._rigid_transform, scipy.optimize._direct, PIL._imaging, kiwisolver._cext, scipy.signal._sigtools, scipy.signal._max_len_seq_inner, scipy.signal._upfirdn_apply, scipy.signal._spline, scipy.interpolate._fitpack, scipy.interpolate._dfitpack, scipy.interpolate._dierckx, scipy.interpolate._ppoly, scipy.interpolate._interpnd, scipy.interpolate._rbfinterp_pythran, scipy.interpolate._rgi_cython, scipy.ndimage._nd_image, scipy.ndimage._rank_filter_1d, _ni_label, scipy.ndimage._ni_label, scipy.signal._sosfilt, scipy.integrate._odepack, scipy.integrate._quadpack, scipy.integrate._vode, scipy.integrate._dop, scipy.integrate._lsoda, scipy.special.cython_special, scipy.stats._stats, scipy.stats._biasedurn, scipy.stats._stats_pythran, scipy.stats._levy_stable.levyst, scipy.stats._ansari_swilk_statistics, scipy.sparse.csgraph._tools, scipy.sparse.csgraph._shortest_path, scipy.sparse.csgraph._traversal, scipy.sparse.csgraph._min_spanning_tree, scipy.sparse.csgraph._flow, scipy.sparse.csgraph._matching, scipy.sparse.csgraph._reordering, scipy.stats._sobol, scipy.stats._qmc_cy, scipy.stats._rcont.rcont, scipy.stats._qmvnt_cy, scipy.signal._peak_finding_utils, pandas._libs.tslibs.ccalendar, pandas._libs.tslibs.np_datetime, pandas._libs.tslibs.dtypes, pandas._libs.tslibs.base, pandas._libs.tslibs.nattype, pandas._libs.tslibs.timezones, pandas._libs.tslibs.fields, pandas._libs.tslibs.timedeltas, pandas._libs.tslibs.tzconversion, pandas._libs.tslibs.timestamps, pandas._libs.properties, pandas._libs.tslibs.offsets, pandas._libs.tslibs.strptime, pandas._libs.tslibs.parsing, pandas._libs.tslibs.conversion, pandas._libs.tslibs.period, pandas._libs.tslibs.vectorized, pandas._libs.ops_dispatch, pandas._libs.missing, pandas._libs.hashtable, pandas._libs.algos, pandas._libs.interval, pandas._libs.lib, pandas._libs.ops, pandas._libs.hashing, pandas._libs.arrays, pandas._libs.tslib, pandas._libs.sparse, pandas._libs.internals, pandas._libs.indexing, pandas._libs.index, pandas._libs.writers, pandas._libs.join, pandas._libs.window.aggregations, pandas._libs.window.indexers, pandas._libs.reshape, pandas._libs.groupby, pandas._libs.json, pandas._libs.parsers, pandas._libs.testing (total: 144) [503371] signal 6 (-6): Aborted in expression starting at REPL[6]:1 pthread_kill at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) gsignal at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) abort at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) fatal_error_exit at /usr/local/src/conda/python-3.14.0/Python/pylifecycle.c:3250 [inlined] fatal_error at /usr/local/src/conda/python-3.14.0/Python/pylifecycle.c:3396 _Py_FatalErrorFunc at /usr/local/src/conda/python-3.14.0/Python/pylifecycle.c:3482 _Py_CheckRecursiveCall at /usr/local/src/conda/python-3.14.0/Python/ceval.c:491 _Py_EnterRecursiveCallTstate at /usr/local/src/conda/python-3.14.0/Include/internal/pycore_ceval.h:216 [inlined] method_enter_call at /usr/local/src/conda/python-3.14.0/Objects/descrobject.c:300 [inlined] method_vectorcall_NOARGS at /usr/local/src/conda/python-3.14.0/Objects/descrobject.c:444 _PyObject_VectorcallTstate at /usr/local/src/conda/python-3.14.0/Include/internal/pycore_call.h:169 [inlined] PyObject_VectorcallMethod at /usr/local/src/conda/python-3.14.0/Objects/call.c:856 PyObject_CallMethodNoArgs at /usr/local/src/conda/python-3.14.0/Include/cpython/abstract.h:65 [inlined] _PyFile_Flush at /usr/local/src/conda/python-3.14.0/Objects/fileobject.c:542 flush_std_files at /usr/local/src/conda/python-3.14.0/Python/pylifecycle.c:1915 fatal_error at /usr/local/src/conda/python-3.14.0/Python/pylifecycle.c:3459 _Py_FatalErrorFunc at /usr/local/src/conda/python-3.14.0/Python/pylifecycle.c:3482 _Py_CheckRecursiveCall at /usr/local/src/conda/python-3.14.0/Python/ceval.c:491 _Py_EnterRecursiveCallTstate at /usr/local/src/conda/python-3.14.0/Include/internal/pycore_ceval.h:216 [inlined] cfunction_enter_call at /usr/local/src/conda/python-3.14.0/Objects/methodobject.c:428 [inlined] cfunction_vectorcall_NOARGS at /usr/local/src/conda/python-3.14.0/Objects/methodobject.c:504 _PyObject_VectorcallTstate at /usr/local/src/conda/python-3.14.0/Include/internal/pycore_call.h:169 _PyObject_CallNoArgs at /usr/local/src/conda/python-3.14.0/Include/internal/pycore_call.h:185 [inlined] _dir_object at /usr/local/src/conda/python-3.14.0/Objects/object.c:2029 [inlined] PyObject_Dir at /usr/local/src/conda/python-3.14.0/Objects/object.c:2052 PyObject_Dir at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/C/pointers.jl:300 [inlined] macro expansion at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/Core/Py.jl:118 [inlined] pydir at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/Core/builtins.jl:191 #4 at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/Core/Py.jl:297 unknown function (ip: 0x7b4ba9b9150f) at (unknown file) jl_apply at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/julia.h:2391 [inlined] jl_f_invokelatest at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/builtins.c:881 #setup_onfixedthread##1 at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/C/context.jl:44 unknown function (ip: 0x7b4ba9b125ff) at (unknown file) jl_apply at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/julia.h:2391 [inlined] start_task at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/task.c:1249 Allocations: 35120552 (Pool: 35118507; Big: 2045); GC: 21 Aborted (core dumped)Hm, with 3.13.9 (should I try 3.13.0?) I get right after pyimport():
$ julia --project=@temp _ _ _ _(_)_ | Documentation: https://docs.julialang.org (_) | (_) (_) | _ _ _| |_ __ _ | Type "?" for help, "]?" for Pkg help. | | | | | | |/ _` | | | | |_| | | | (_| | | Version 1.12.1 (2025-10-17) _/ |\__'_|_|_|\__'_| | Official https://julialang.org release |__/ | julia> using PythonCall │ Package PythonCall not found, but a package named PythonCall is available from a registry. │ Install package? │ (jl_A5OqBg) pkg> add PythonCall └ (y/n/o) [y]: Resolving package versions... Updating `/tmp/jl_A5OqBg/Project.toml` [6099a3de] + PythonCall v0.9.29 Updating `/tmp/jl_A5OqBg/Manifest.toml` [992eb4ea] + CondaPkg v0.2.33 [9a962f9c] + DataAPI v1.16.0 [e2d170a0] + DataValueInterfaces v1.0.0 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [0f8b85d8] + JSON3 v1.14.3 [1914dd2f] + MacroTools v0.5.16 [0b3b1443] + MicroMamba v0.1.14 [bac558e1] + OrderedCollections v1.8.1 [69de0a69] + Parsers v2.8.3 [fa939f87] + Pidfile v1.3.0 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.0 [6099a3de] + PythonCall v0.9.29 [6c6a2e73] + Scratch v1.3.0 [856f2bd8] + StructTypes v1.11.0 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [e17b2a0c] + UnsafePointers v1.0.0 ⌅ [f8abcde7] + micromamba_jll v1.5.12+0 [4d7b5844] + pixi_jll v0.41.3+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [f43a241f] + Downloads v1.6.0 [7b1f6079] + FileWatching v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.12.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [deac9b47] + LibCURL_jll v8.11.1+1 [e37daf67] + LibGit2_jll v1.9.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.5.20 [458c3c95] + OpenSSL_jll v3.5.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850ede] + nghttp2_jll v1.64.0+1 [3f19e933] + p7zip_jll v17.5.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` CondaPkg Found dependencies: /home/kjwiik/.julia/packages/PythonCall/Ds20G/CondaPkg.toml CondaPkg Found dependencies: /home/kjwiik/.julia/packages/CondaPkg/0UqYV/CondaPkg.toml CondaPkg Resolving changes + libstdcxx + libstdcxx-ng + openssl + python CondaPkg Initialising pixi │ /home/kjwiik/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ init │ --format pixi └ /tmp/jl_A5OqBg/.CondaPkg ✔ Created /tmp/jl_A5OqBg/.CondaPkg/pixi.toml CondaPkg Wrote /tmp/jl_A5OqBg/.CondaPkg/pixi.toml │ [dependencies] │ openssl = ">=3, <3.6" │ libstdcxx = ">=3.4,<15.0" │ libstdcxx-ng = ">=3.4,<15.0" │ │ [dependencies.python] │ channel = "conda-forge" │ build = "*cp*" │ version = ">=3.10,<4" │ │ [project] │ name = ".CondaPkg" │ platforms = ["linux-64"] │ channels = ["conda-forge"] │ channel-priority = "strict" └ description = "automatically generated by CondaPkg.jl" CondaPkg Installing packages │ /home/kjwiik/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ install └ --manifest-path /tmp/jl_A5OqBg/.CondaPkg/pixi.toml ✔ The default environment has been installed. julia> using CondaPkg │ Package CondaPkg not found, but a package named CondaPkg is available from a registry. │ Install package? │ (jl_A5OqBg) pkg> add CondaPkg └ (y/n/o) [y]: Resolving package versions... Updating `/tmp/jl_A5OqBg/Project.toml` [992eb4ea] + CondaPkg v0.2.33 Manifest No packages added to or removed from `/tmp/jl_A5OqBg/Manifest.toml` julia> CondaPkg.add("python", version="<3.14") CondaPkg Found dependencies: /tmp/jl_A5OqBg/CondaPkg.toml CondaPkg Found dependencies: /home/kjwiik/.julia/packages/PythonCall/Ds20G/CondaPkg.toml CondaPkg Found dependencies: /home/kjwiik/.julia/packages/CondaPkg/0UqYV/CondaPkg.toml CondaPkg Resolving changes ~ python CondaPkg Initialising pixi │ /home/kjwiik/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ init │ --format pixi └ /tmp/jl_A5OqBg/.CondaPkg ✔ Created /tmp/jl_A5OqBg/.CondaPkg/pixi.toml CondaPkg Wrote /tmp/jl_A5OqBg/.CondaPkg/pixi.toml │ [dependencies] │ openssl = ">=3, <3.6" │ libstdcxx = ">=3.4,<15.0" │ libstdcxx-ng = ">=3.4,<15.0" │ │ [dependencies.python] │ channel = "conda-forge" │ build = "*cp*" │ version = "<3.14, >=3.10,<4" │ │ [project] │ name = ".CondaPkg" │ platforms = ["linux-64"] │ channels = ["conda-forge"] │ channel-priority = "strict" └ description = "automatically generated by CondaPkg.jl" CondaPkg Installing packages │ /home/kjwiik/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ install └ --manifest-path /tmp/jl_A5OqBg/.CondaPkg/pixi.toml ✔ The default environment has been installed. (jl_A5OqBg) pkg> conda add scikit-rf CondaPkg Found dependencies: /tmp/jl_A5OqBg/CondaPkg.toml CondaPkg Found dependencies: /home/kjwiik/.julia/packages/PythonCall/Ds20G/CondaPkg.toml CondaPkg Found dependencies: /home/kjwiik/.julia/packages/CondaPkg/0UqYV/CondaPkg.toml CondaPkg Resolving changes + scikit-rf CondaPkg Initialising pixi │ /home/kjwiik/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ init │ --format pixi └ /tmp/jl_A5OqBg/.CondaPkg ✔ Created /tmp/jl_A5OqBg/.CondaPkg/pixi.toml CondaPkg Wrote /tmp/jl_A5OqBg/.CondaPkg/pixi.toml │ [dependencies] │ openssl = ">=3, <3.6" │ libstdcxx = ">=3.4,<15.0" │ libstdcxx-ng = ">=3.4,<15.0" │ scikit-rf = "*" │ │ [dependencies.python] │ channel = "conda-forge" │ build = "*cp*" │ version = "<3.14, >=3.10,<4" │ │ [project] │ name = ".CondaPkg" │ platforms = ["linux-64"] │ channels = ["conda-forge"] │ channel-priority = "strict" └ description = "automatically generated by CondaPkg.jl" CondaPkg Installing packages │ /home/kjwiik/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ install └ --manifest-path /tmp/jl_A5OqBg/.CondaPkg/pixi.toml ✔ The default environment has been installed. (jl_A5OqBg) pkg> st Status `/tmp/jl_A5OqBg/Project.toml` [992eb4ea] CondaPkg v0.2.33 [6099a3de] PythonCall v0.9.29 (jl_A5OqBg) pkg> conda st CondaPkg Status /tmp/jl_A5OqBg/CondaPkg.toml Environment /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default Packages python v3.13.9 (<3.14) scikit-rf v1.8.0 julia> using PythonCall julia> rf = pyimport("skrf") ERROR: Python: Fatal Python error: _Py_CheckRecursiveCall: Unrecoverable stack overflow (used 445562 kB) while calling a Python object Python runtime state: initialized Current thread 0x00007c0f3e3cf140 [julia] (most recent call first): <no Python frame> [557363] signal 6 (-6): Aborted in expression starting at REPL[9]:1 pthread_kill at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) gsignal at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) abort at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x7c0ee998f4ae) at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 _Py_FatalErrorFunc at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 (unknown line) unknown function (ip: 0x7c0ee98addf8) at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 unknown function (ip: 0x7c0ee98be0da) at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 PyObject_VectorcallMethod at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 (unknown line) unknown function (ip: 0x7c0ee9ae5a59) at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 unknown function (ip: 0x7c0ee9b0272a) at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 unknown function (ip: 0x7c0ee998f7ba) at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 _Py_FatalErrorFunc at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 (unknown line) unknown function (ip: 0x7c0ee98addf8) at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 unknown function (ip: 0x7c0ee98b1d60) at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 PyObject_CallFunction at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 (unknown line) PyImport_Import at /tmp/jl_A5OqBg/.CondaPkg/.pixi/envs/default/lib/libpython3.14.so.1.0 (unknown line) PyImport_Import at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/C/pointers.jl:300 [inlined] macro expansion at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/Core/Py.jl:118 [inlined] pyimport at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/Core/builtins.jl:1458 #_showerror#15 at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/Core/err.jl:110 _showerror at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/Core/err.jl:97 [inlined] #showerror#14 at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/Core/err.jl:94 [inlined] showerror at /home/kjwiik/.julia/packages/PythonCall/Ds20G/src/Core/err.jl:94 unknown function (ip: 0x7c0f0212aa42) at (unknown file) show_exception_stack at ./errorshow.jl:1016 display_error at ./client.jl:110 jfptr_display_error_16923.1 at /home/kjwiik/.julia/juliaup/julia-1.12.1+0.x64.linux.gnu/share/julia/compiled/v1.12/REPL/u0gqU_UDl4g.so (unknown line) jl_apply at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/julia.h:2391 [inlined] jl_f_invokelatest at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/builtins.c:881 repl_display_error at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPL.jl:567 print_response at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPL.jl:584 #print_response##0 at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPL.jl:558 jfptr_YY.print_responseYY.YY.0_18324.1 at /home/kjwiik/.julia/juliaup/julia-1.12.1+0.x64.linux.gnu/share/julia/compiled/v1.12/REPL/u0gqU_UDl4g.so (unknown line) with_repl_linfo at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPL.jl:833 jfptr_with_repl_linfo_18268.1 at /home/kjwiik/.julia/juliaup/julia-1.12.1+0.x64.linux.gnu/share/julia/compiled/v1.12/REPL/u0gqU_UDl4g.so (unknown line) print_response at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPL.jl:556 do_respond at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPL.jl:1192 jfptr_do_respond_17885.1 at /home/kjwiik/.julia/juliaup/julia-1.12.1+0.x64.linux.gnu/share/julia/compiled/v1.12/REPL/u0gqU_UDl4g.so (unknown line) jl_apply at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/julia.h:2391 [inlined] jl_f_invokelatest at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/builtins.c:881 run_interface at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/LineEdit.jl:2854 run_frontend at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPL.jl:1663 #61 at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPL.jl:650 jfptr_YY.61_17990.1 at /home/kjwiik/.julia/juliaup/julia-1.12.1+0.x64.linux.gnu/share/julia/compiled/v1.12/REPL/u0gqU_UDl4g.so (unknown line) jl_apply at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/julia.h:2391 [inlined] start_task at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/task.c:1249 Allocations: 58101029 (Pool: 58098907; Big: 2122); GC: 28 Aborted (core dumped)Hm, the error message has references to
libpython3.14.so.1.0even whenconda stgives 3.13.9, maybe 3.14 is still used? How to ensure <3.14?You need to do the CondaPkg commands before importing PythonCall otherwise you'll get the old Python version.
Doh! Indeed, now it is working fine, many thanks! This makes my life so much easier :-)!
Reacted by Christopher Rowley
Affects: PythonCall
Describe the bug
Here is the full dump:
Details
[33140] signal 11 (1): Segmentation fault in expression starting at REPL[2]:1 _PyInterpreterState_GET at /usr/local/src/conda/python-3.13.9/Include/internal/pycore_pystate.h:214 [inlined] _PyType_LookupRef at /usr/local/src/conda/python-3.13.9/Objects/typeobject.c:5234 [inlined] _PyObject_LookupSpecial at /usr/local/src/conda/python-3.13.9/Objects/typeobject.c:2506 _dir_object at /usr/local/src/conda/python-3.13.9/Objects/object.c:1977 [inlined] PyObject_Dir at /usr/local/src/conda/python-3.13.9/Objects/object.c:2009 PyObject_Dir at /home/kjwiik/.julia/packages/PythonCall/mkWc2/src/C/pointers.jl:300 [inlined] macro expansion at /home/kjwiik/.julia/packages/PythonCall/mkWc2/src/Core/Py.jl:118 [inlined] pydir at /home/kjwiik/.julia/packages/PythonCall/mkWc2/src/Core/builtins.jl:191 propertynames at /home/kjwiik/.julia/packages/PythonCall/mkWc2/src/Core/Py.jl:270 unknown function (ip: 0x7b8401753beb) at (unknown file) #complete_symbol!#6 at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPLCompletions.jl:230 complete_symbol! at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPLCompletions.jl:184 unknown function (ip: 0x7b840174bfd6) at (unknown file) completions at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPLCompletions.jl:1150 #complete_line#66 at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPL.jl:809 complete_line at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/REPL.jl:807 unknown function (ip: 0x7b840170e77c) at (unknown file) #complete_line_named#17 at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/LineEdit.jl:401 complete_line_named at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/LineEdit.jl:400 [inlined] macro expansion at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/LineEdit.jl:442 [inlined] macro expansion at ./lock.jl:376 [inlined] #check_show_hint##2 at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/usr/share/julia/stdlib/v1.12/REPL/src/LineEdit.jl:439 jfptr_YY.check_show_hintYY.YY.2_17954.1 at /home/kjwiik/.julia/juliaup/julia-1.12.1+0.x64.linux.gnu/share/julia/compiled/v1.12/REPL/u0gqU_UDl4g.so (unknown line) jl_apply at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/julia.h:2391 [inlined] start_task at /cache/build/tester-amdci4-14/julialang/julia-release-1-dot-12/src/task.c:1249 Allocations: 29426553 (Pool: 29424566; Big: 1987); GC: 22 Segmentation fault (core dumped)
Occurs with both Python 3.13 and 3.14 and only in REPL. In script, everything works fine:
Script: