Package evaluation of MRCFile on Julia 1.10.8 (92f03a4775*) started at 2025-02-25T05:44:34.522 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 5.1s ################################################################################ # Installation # Installing MRCFile... Resolving package versions... Updating `~/.julia/environments/v1.10/Project.toml` [c18c01d3] + MRCFile v0.1.3 Updating `~/.julia/environments/v1.10/Manifest.toml` [523fee87] + CodecBzip2 v0.8.5 [ba30903b] + CodecXz v0.7.4 [944b1d66] + CodecZlib v0.7.8 [692b3bcd] + JLLWrappers v1.7.0 [c18c01d3] + MRCFile v0.1.3 [21216c6a] + Preferences v1.4.3 ⌅ [3bb67fe8] + TranscodingStreams v0.10.10 [6e34b625] + Bzip2_jll v1.0.9+0 [ffd25f8a] + XZ_jll v5.6.4+1 [56f22d72] + Artifacts [ade2ca70] + Dates [8f399da3] + Libdl [37e2e46d] + LinearAlgebra [a63ad114] + Mmap [de0858da] + Printf [9a3f8284] + Random [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization [2f01184e] + SparseArrays v1.10.0 [10745b16] + Statistics v1.10.0 [fa267f1f] + TOML v1.0.3 [4ec0a83e] + Unicode [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [4536629a] + OpenBLAS_jll v0.3.23+4 [bea87d4a] + SuiteSparse_jll v7.2.1+1 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 5.36s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 19.13s ################################################################################ # Testing # Testing MRCFile Status `/tmp/jl_0s5rzM/Project.toml` [523fee87] CodecBzip2 v0.8.5 [ba30903b] CodecXz v0.7.4 [944b1d66] CodecZlib v0.7.8 [992eb4ea] CondaPkg v0.2.25 [c18c01d3] MRCFile v0.1.3 [6099a3de] PythonCall v0.9.24 ⌅ [3bb67fe8] TranscodingStreams v0.10.10 [ade2ca70] Dates [a63ad114] Mmap [10745b16] Statistics v1.10.0 [8dfed614] Test Status `/tmp/jl_0s5rzM/Manifest.toml` [523fee87] CodecBzip2 v0.8.5 [ba30903b] CodecXz v0.7.4 [944b1d66] CodecZlib v0.7.8 [992eb4ea] CondaPkg v0.2.25 [9a962f9c] DataAPI v1.16.0 [e2d170a0] DataValueInterfaces v1.0.0 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [0f8b85d8] JSON3 v1.14.1 [c18c01d3] MRCFile v0.1.3 [1914dd2f] MacroTools v0.5.15 [0b3b1443] MicroMamba v0.1.14 [bac558e1] OrderedCollections v1.8.0 [69de0a69] Parsers v2.8.1 [fa939f87] Pidfile v1.3.0 [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.4.3 [6099a3de] PythonCall v0.9.24 [ae029012] Requires v1.3.0 [6c6a2e73] Scratch v1.2.1 [856f2bd8] StructTypes v1.11.0 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.0 ⌅ [3bb67fe8] TranscodingStreams v0.10.10 [e17b2a0c] UnsafePointers v1.0.0 [6e34b625] Bzip2_jll v1.0.9+0 [ffd25f8a] XZ_jll v5.6.4+1 [f8abcde7] micromamba_jll v1.5.8+0 [4d7b5844] pixi_jll v0.41.3+0 [0dad84c5] ArgTools v1.1.1 [56f22d72] Artifacts [2a0f44e3] Base64 [ade2ca70] Dates [f43a241f] Downloads v1.6.0 [7b1f6079] FileWatching [b77e0a4c] InteractiveUtils [4af54fe1] LazyArtifacts [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 [8f399da3] Libdl [37e2e46d] LinearAlgebra [56ddb016] Logging [d6f4376e] Markdown [a63ad114] Mmap [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.10.0 [de0858da] Printf [3fa0cd96] REPL [9a3f8284] Random [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization [6462fe0b] Sockets [2f01184e] SparseArrays v1.10.0 [10745b16] Statistics v1.10.0 [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test [cf7118a7] UUIDs [4ec0a83e] Unicode [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] LibCURL_jll v8.4.0+0 [e37daf67] LibGit2_jll v1.6.4+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.2+1 [14a3606d] MozillaCACerts_jll v2023.1.10 [4536629a] OpenBLAS_jll v0.3.23+4 [bea87d4a] SuiteSparse_jll v7.2.1+1 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.52.0+1 [3f19e933] p7zip_jll v17.4.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... CondaPkg Found dependencies: /home/pkgeval/.julia/packages/PythonCall/WMWY0/CondaPkg.toml CondaPkg Found dependencies: /home/pkgeval/.julia/packages/MRCFile/WjB0Q/CondaPkg.toml CondaPkg Resolving changes + libstdcxx-ng + mrcfile + numpy + python CondaPkg Initialising pixi │ /home/pkgeval/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ init │ --format pixi └ /tmp/jl_0s5rzM/.CondaPkg ✔ Created /tmp/jl_0s5rzM/.CondaPkg/pixi.toml CondaPkg Wrote /tmp/jl_0s5rzM/.CondaPkg/pixi.toml │ [dependencies] │ libstdcxx-ng = ">=3.4,<13.0" │ mrcfile = ">=1.2,<2.0" │ numpy = ">=1.1,<2.0" │ │ [dependencies.python] │ channel = "conda-forge" │ build = "*cpython*" │ version = ">=3.8,<4" │ │ [project] │ name = ".CondaPkg" │ platforms = ["linux-64"] │ channels = ["conda-forge"] │ channel-priority = "disabled" └ description = "automatically generated by CondaPkg.jl" CondaPkg Installing packages │ /home/pkgeval/.julia/artifacts/cefba4912c2b400756d043a2563ef77a0088866b/bin/pixi │ install └ --manifest-path /tmp/jl_0s5rzM/.CondaPkg/pixi.toml ✔ The default environment has been installed. [30] signal (11.128): Segmentation fault in expression starting at /home/pkgeval/.julia/packages/MRCFile/WjB0Q/test/consistency.jl:3 pymalloc_alloc at /usr/local/src/conda/python-3.12.5/Objects/obmalloc.c:1544 [inlined] _PyObject_Malloc at /usr/local/src/conda/python-3.12.5/Objects/obmalloc.c:1564 [inlined] PyObject_Malloc at /usr/local/src/conda/python-3.12.5/Objects/obmalloc.c:801 [inlined] _PyLong_New at /usr/local/src/conda/python-3.12.5/Objects/longobject.c:158 [inlined] x_mul at /usr/local/src/conda/python-3.12.5/Objects/longobject.c:3577 [inlined] k_mul at /usr/local/src/conda/python-3.12.5/Objects/longobject.c:3749 _PyLong_Multiply at /usr/local/src/conda/python-3.12.5/Objects/longobject.c:3992 [inlined] _PyLong_Multiply at /usr/local/src/conda/python-3.12.5/Objects/longobject.c:3982 [inlined] long_mul at /usr/local/src/conda/python-3.12.5/Objects/longobject.c:4006 binary_op1 at /usr/local/src/conda/python-3.12.5/Objects/abstract.c:882 [inlined] PyNumber_Multiply at /usr/local/src/conda/python-3.12.5/Objects/abstract.c:1100 fill_time at /usr/local/src/conda/python-3.12.5/Modules/posixmodule.c:2462 _pystat_fromstructstat at /usr/local/src/conda/python-3.12.5/Modules/posixmodule.c:2589 posix_do_stat at /usr/local/src/conda/python-3.12.5/Modules/posixmodule.c:2717 os_stat_impl at /usr/local/src/conda/python-3.12.5/Modules/posixmodule.c:3064 [inlined] os_stat at /usr/local/src/conda/python-3.12.5/Modules/clinic/posixmodule.c.h:100 _PyEval_EvalFrameDefault at /home/conda/feedstock_root/build_artifacts/python-split_1723141048588/work/build-shared/Python/bytecodes.c:2974 _PyEval_EvalFrame at /usr/local/src/conda/python-3.12.5/Include/internal/pycore_ceval.h:89 [inlined] _PyEval_Vector at /usr/local/src/conda/python-3.12.5/Python/ceval.c:1683 [inlined] _PyFunction_Vectorcall at /usr/local/src/conda/python-3.12.5/Objects/call.c:419 [inlined] _PyObject_FastCallDictTstate at /usr/local/src/conda/python-3.12.5/Objects/call.c:133 _PyObject_Call_Prepend at /usr/local/src/conda/python-3.12.5/Objects/call.c:508 [inlined] slot_tp_init at /usr/local/src/conda/python-3.12.5/Objects/typeobject.c:9023 type_call at /usr/local/src/conda/python-3.12.5/Objects/typeobject.c:1677 [inlined] _PyObject_MakeTpCall at /usr/local/src/conda/python-3.12.5/Objects/call.c:240 _PyEval_EvalFrameDefault at /home/conda/feedstock_root/build_artifacts/python-split_1723141048588/work/build-shared/Python/bytecodes.c:2714 _PyObject_VectorcallTstate at /usr/local/src/conda/python-3.12.5/Include/internal/pycore_call.h:92 [inlined] object_vacall at /usr/local/src/conda/python-3.12.5/Objects/call.c:850 PyObject_CallMethodObjArgs at /usr/local/src/conda/python-3.12.5/Objects/call.c:911 import_find_and_load at /usr/local/src/conda/python-3.12.5/Python/import.c:2779 [inlined] PyImport_ImportModuleLevelObject at /usr/local/src/conda/python-3.12.5/Python/import.c:2862 builtin___import___impl at /usr/local/src/conda/python-3.12.5/Python/bltinmodule.c:275 [inlined] builtin___import__ at /usr/local/src/conda/python-3.12.5/Python/clinic/bltinmodule.c.h:107 cfunction_vectorcall_FASTCALL_KEYWORDS at /usr/local/src/conda/python-3.12.5/Objects/methodobject.c:438 _PyObject_VectorcallTstate at /usr/local/src/conda/python-3.12.5/Include/internal/pycore_call.h:92 [inlined] _PyObject_CallFunctionVa at /usr/local/src/conda/python-3.12.5/Objects/call.c:562 [inlined] PyObject_CallFunction at /usr/local/src/conda/python-3.12.5/Objects/call.c:584 PyImport_Import at /usr/local/src/conda/python-3.12.5/Python/import.c:3048 PyImport_Import at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/C/pointers.jl:303 unknown function (ip: 0x7a19ee2028e5) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_invoke at /source/src/gf.c:2902 unknown function (ip: 0x7a19ee201c49) unknown function (ip: 0x7a19ee201a16) macro expansion at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/Core/Py.jl:132 [inlined] pyimport at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/Core/builtins.jl:1561 init_juliacall at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/Core/juliacall.jl:26 unknown function (ip: 0x7a19ee20772f) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_invoke at /source/src/gf.c:2902 unknown function (ip: 0x7a19ef3ff379) unknown function (ip: 0x7a19ef3ff31d) __init__ at /home/pkgeval/.julia/packages/PythonCall/WMWY0/src/Core/Core.jl:45 unknown function (ip: 0x7a19ef3ff21f) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] jl_module_run_initializer at /source/src/toplevel.c:76 run_module_init at ./loading.jl:1193 register_restored_modules at ./loading.jl:1181 _include_from_serialized at ./loading.jl:1126 _tryrequire_from_serialized at ./loading.jl:1601 _require at ./loading.jl:2060 __require_prelocked at ./loading.jl:1882 jfptr___require_prelocked_81036.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] jl_f__call_in_world at /source/src/builtins.c:831 #invoke_in_world#3 at ./essentials.jl:926 [inlined] invoke_in_world at ./essentials.jl:923 [inlined] _require_prelocked at ./loading.jl:1873 macro expansion at ./loading.jl:1860 [inlined] macro expansion at ./lock.jl:267 [inlined] __require at ./loading.jl:1823 jfptr___require_80999.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] jl_f__call_in_world at /source/src/builtins.c:831 #invoke_in_world#3 at ./essentials.jl:926 [inlined] invoke_in_world at ./essentials.jl:923 [inlined] require at ./loading.jl:1816 jfptr_require_80996.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] call_require at /source/src/toplevel.c:481 [inlined] eval_import_path at /source/src/toplevel.c:518 jl_toplevel_eval_flex at /source/src/toplevel.c:752 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 eval at ./boot.jl:385 [inlined] include_string at ./loading.jl:2146 _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 _include at ./loading.jl:2206 include at ./client.jl:494 unknown function (ip: 0x7a19ef300125) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:635 eval_body at /source/src/interpreter.c:544 eval_body at /source/src/interpreter.c:544 jl_interpret_toplevel_thunk at /source/src/interpreter.c:775 jl_toplevel_eval_flex at /source/src/toplevel.c:934 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 eval at ./boot.jl:385 [inlined] include_string at ./loading.jl:2146 _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 _include at ./loading.jl:2206 include at ./client.jl:494 unknown function (ip: 0x7a19ef300125) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:635 jl_interpret_toplevel_thunk at /source/src/interpreter.c:775 jl_toplevel_eval_flex at /source/src/toplevel.c:934 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 eval at ./boot.jl:385 [inlined] exec_options at ./client.jl:296 _start at ./client.jl:557 jfptr__start_82985.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] true_main at /source/src/jlapi.c:582 jl_repl_entrypoint at /source/src/jlapi.c:731 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7a19f0150249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) Allocations: 12244100 (Pool: 12234220; Big: 9880); GC: 20 Testing failed after 75.47s ERROR: LoadError: Package MRCFile errored during testing (received signal: 11) Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Types.jl:70 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:2034 [3] test @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1915 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::Base.PipeEndpoint}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:444 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::Base.PipeEndpoint, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:159 [6] test @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:147 [inlined] [7] #test#74 @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:146 [inlined] [8] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval crashed after 112.26s: a segmentation fault happened