Package evaluation of SymFEL on Julia 1.13.0-DEV.655 (3a5e1f15ec*) started at 2025-05-29T17:02:28.272


################################################################################
# Set-up
#

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 5.76s


################################################################################
# Installation
#

Installing SymFEL...
   Resolving package versions...
   Installed Conda ── v1.10.2
   Installed PyCall ─ v1.96.4
    Updating `~/.julia/environments/v1.13/Project.toml`
  [98344202] + SymFEL v0.3.0
    Updating `~/.julia/environments/v1.13/Manifest.toml`
⌅ [3709ef60] + CommonEq v0.2.0
  [38540f10] + CommonSolve v0.2.4
  [8f4d0f93] + Conda v1.10.2
  [ffbed154] + DocStringExtensions v0.9.4
  [1fa38f19] + Format v1.3.7
  [92d709cd] + IrrationalConstants v0.2.4
  [692b3bcd] + JLLWrappers v1.7.0
  [682c06a0] + JSON v0.21.4
  [b964fa9f] + LaTeXStrings v1.4.0
  [23fbe1c1] + Latexify v0.16.7
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [1914dd2f] + MacroTools v0.5.16
  [bac558e1] + OrderedCollections v1.8.1
  [69de0a69] + Parsers v2.8.3
  [aea7be01] + PrecompileTools v1.3.2
  [21216c6a] + Preferences v1.4.3
  [438e738f] + PyCall v1.96.4
  [3cdcf5f2] + RecipesBase v1.3.4
  [ae029012] + Requires v1.3.1
  [276daf66] + SpecialFunctions v2.5.1
  [98344202] + SymFEL v0.3.0
⌅ [24249f21] + SymPy v1.2.1
  [81def892] + VersionParsing v1.3.0
  [efe28fd5] + OpenSpecFun_jll v0.5.6+0
  [0dad84c5] + ArgTools v1.1.2
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates v1.11.0
  [f43a241f] + Downloads v1.7.0
  [7b1f6079] + FileWatching v1.11.0
  [b77e0a4c] + InteractiveUtils v1.11.0
  [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0
  [b27032c2] + LibCURL v0.6.4
  [8f399da3] + Libdl v1.11.0
  [37e2e46d] + LinearAlgebra v1.12.0
  [d6f4376e] + Markdown v1.11.0
  [a63ad114] + Mmap v1.11.0
  [ca575930] + NetworkOptions v1.3.0
  [de0858da] + Printf v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v0.7.0
  [9e88b42a] + Serialization v1.11.0
  [2f01184e] + SparseArrays v1.12.0
  [f489334b] + StyledStrings v1.11.0
  [fa267f1f] + TOML v1.0.3
  [cf7118a7] + UUIDs v1.11.0
  [4ec0a83e] + Unicode v1.11.0
  [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1
  [deac9b47] + LibCURL_jll v8.12.1+1
  [29816b5a] + LibSSH2_jll v1.11.3+1
  [14a3606d] + MozillaCACerts_jll v2025.5.20
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [05823500] + OpenLibm_jll v0.8.5+0
  [458c3c95] + OpenSSL_jll v3.5.0+0
  [bea87d4a] + SuiteSparse_jll v7.10.1+0
  [83775a58] + Zlib_jll v1.3.1+2
  [8e850b90] + libblastrampoline_jll v5.12.0+0
  [8e850ede] + nghttp2_jll v1.65.0+0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m`
    Building Conda ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/b19db3927f0db4151cb86d073689f2428e524576/build.log`
    Building PyCall → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/9816a3826b0ebf49ab4926e2b18842ad8b5c8f04/build.log`

Installation completed after 42.33s


################################################################################
# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 38.47s


################################################################################
# Testing
#

     Testing SymFEL
      Status `/tmp/jl_4IipGQ/Project.toml`
  [98344202] SymFEL v0.3.0
⌅ [24249f21] SymPy v1.2.1
  [37e2e46d] LinearAlgebra v1.12.0
  [2f01184e] SparseArrays v1.12.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_4IipGQ/Manifest.toml`
⌅ [3709ef60] CommonEq v0.2.0
  [38540f10] CommonSolve v0.2.4
  [8f4d0f93] Conda v1.10.2
  [ffbed154] DocStringExtensions v0.9.4
  [1fa38f19] Format v1.3.7
  [92d709cd] IrrationalConstants v0.2.4
  [692b3bcd] JLLWrappers v1.7.0
  [682c06a0] JSON v0.21.4
  [b964fa9f] LaTeXStrings v1.4.0
  [23fbe1c1] Latexify v0.16.7
  [2ab3a3ac] LogExpFunctions v0.3.29
  [1914dd2f] MacroTools v0.5.16
  [bac558e1] OrderedCollections v1.8.1
  [69de0a69] Parsers v2.8.3
  [aea7be01] PrecompileTools v1.3.2
  [21216c6a] Preferences v1.4.3
  [438e738f] PyCall v1.96.4
  [3cdcf5f2] RecipesBase v1.3.4
  [ae029012] Requires v1.3.1
  [276daf66] SpecialFunctions v2.5.1
  [98344202] SymFEL v0.3.0
⌅ [24249f21] SymPy v1.2.1
  [81def892] VersionParsing v1.3.0
  [efe28fd5] OpenSpecFun_jll v0.5.6+0
  [0dad84c5] ArgTools v1.1.2
  [56f22d72] Artifacts v1.11.0
  [2a0f44e3] Base64 v1.11.0
  [ade2ca70] Dates v1.11.0
  [f43a241f] Downloads v1.7.0
  [7b1f6079] FileWatching v1.11.0
  [b77e0a4c] InteractiveUtils v1.11.0
  [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0
  [b27032c2] LibCURL v0.6.4
  [8f399da3] Libdl v1.11.0
  [37e2e46d] LinearAlgebra v1.12.0
  [56ddb016] Logging v1.11.0
  [d6f4376e] Markdown v1.11.0
  [a63ad114] Mmap v1.11.0
  [ca575930] NetworkOptions v1.3.0
  [de0858da] Printf v1.11.0
  [9a3f8284] Random v1.11.0
  [ea8e919c] SHA v0.7.0
  [9e88b42a] Serialization v1.11.0
  [2f01184e] SparseArrays v1.12.0
  [f489334b] StyledStrings v1.11.0
  [fa267f1f] TOML v1.0.3
  [8dfed614] Test v1.11.0
  [cf7118a7] UUIDs v1.11.0
  [4ec0a83e] Unicode v1.11.0
  [e66e0078] CompilerSupportLibraries_jll v1.3.0+1
  [deac9b47] LibCURL_jll v8.12.1+1
  [29816b5a] LibSSH2_jll v1.11.3+1
  [14a3606d] MozillaCACerts_jll v2025.5.20
  [4536629a] OpenBLAS_jll v0.3.29+0
  [05823500] OpenLibm_jll v0.8.5+0
  [458c3c95] OpenSSL_jll v3.5.0+0
  [bea87d4a] SuiteSparse_jll v7.10.1+0
  [83775a58] Zlib_jll v1.3.1+2
  [8e850b90] libblastrampoline_jll v5.12.0+0
  [8e850ede] nghttp2_jll v1.65.0+0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...
# Testing Lagrange elements
# Testing Hermite elements
n = 2
ErrorException("The degree of Hermite polynomials should be odd and >= 3")
Testing get_em() function.
ErrorException("Only Lagrange and Hermite FEM are implemented.")
ErrorException("The third argument should verify der1 ∈ [0, …, deg1]...")
ErrorException("The fourth parameter should verify der2 ∈ [0, …, deg2]...")
ErrorException("The third parameter should verify der1 ∈ [0, …,int(deg1 / 2 + 1)]...")
ErrorException("The fourth parameter should verify der2 ∈ [0, …,int(deg2 / 2 + 1)]...")

[303] signal 11 (1): Segmentation fault
in expression starting at /home/pkgeval/.julia/packages/SymFEL/Gz8D0/test/runtests.jl:135
_PyInterpreterState_GET at /usr/local/src/conda/python-3.12.10/Include/internal/pycore_pystate.h:133 [inlined]
get_state at /usr/local/src/conda/python-3.12.10/Objects/obmalloc.c:866 [inlined]
_PyObject_Free at /usr/local/src/conda/python-3.12.10/Objects/obmalloc.c:1850 [inlined]
PyMem_Free at /usr/local/src/conda/python-3.12.10/Objects/obmalloc.c:732 [inlined]
list_dealloc at /usr/local/src/conda/python-3.12.10/Objects/listobject.c:358
_Py_Dealloc at /usr/local/src/conda/python-3.12.10/Objects/object.c:2640 [inlined]
Py_DECREF at /usr/local/src/conda/python-3.12.10/Include/object.h:705 [inlined]
Py_XDECREF at /usr/local/src/conda/python-3.12.10/Include/object.h:798 [inlined]
list_dealloc at /usr/local/src/conda/python-3.12.10/Objects/listobject.c:356
pydecref_ at /home/pkgeval/.julia/packages/PyCall/1gn3u/src/PyCall.jl:118 [inlined]
pydecref at /home/pkgeval/.julia/packages/PyCall/1gn3u/src/PyCall.jl:123
unknown function (ip: 0x78c7933b0105) at (unknown file)
_jl_invoke at /source/src/gf.c:3597 [inlined]
ijl_apply_generic at /source/src/gf.c:3797
run_finalizer at /source/src/gc-common.c:180
jl_gc_run_finalizers_in_list at /source/src/gc-common.c:270
run_finalizers at /source/src/gc-common.c:316
finish_nocycle at ./../usr/share/julia/Compiler/src/typeinfer.jl:241
jfptr_finish_nocycle_88180.1 at /opt/julia/lib/julia/sys.so (unknown line)
_jl_invoke at /source/src/gf.c:3597 [inlined]
ijl_apply_generic at /source/src/gf.c:3797
typeinf at ./../usr/share/julia/Compiler/src/abstractinterpretation.jl:4490
typeinf_ext at ./../usr/share/julia/Compiler/src/typeinfer.jl:1391
typeinf_ext_toplevel at ./../usr/share/julia/Compiler/src/typeinfer.jl:1560
typeinf_ext_toplevel at ./../usr/share/julia/Compiler/src/typeinfer.jl:1568
jfptr_typeinf_ext_toplevel_85790.1 at /opt/julia/lib/julia/sys.so (unknown line)
_jl_invoke at /source/src/gf.c:3597 [inlined]
ijl_apply_generic at /source/src/gf.c:3797
jl_apply at /source/src/julia.h:2340 [inlined]
jl_type_infer at /source/src/gf.c:461
jl_compile_method_internal at /source/src/gf.c:3104
_jl_invoke at /source/src/gf.c:3589 [inlined]
ijl_apply_generic at /source/src/gf.c:3797
jl_apply at /source/src/julia.h:2340 [inlined]
start_task at /source/src/task.c:1249
Allocations: 19589559 (Pool: 19589411; Big: 148); GC: 15

Testing failed after 43.06s

ERROR: LoadError: Package SymFEL errored during testing (received signal: 11)
Stacktrace:
  [1] pkgerror(msg::String)
    @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Types.jl:68
  [2] test(ctx::Pkg.Types.Context, pkgs::Vector{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/v1.13/Pkg/src/Operations.jl:2421
  [3] test
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2276 [inlined]
  [4] test(ctx::Pkg.Types.Context, pkgs::Vector{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::IOContext{IO}})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:498
  [5] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:164
  [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:152
  [7] test
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:152 [inlined]
  [8] #test#81
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:151 [inlined]
  [9] top-level scope
    @ /PkgEval.jl/scripts/evaluate.jl:219
 [10] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [11] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:331
 [12] _start()
    @ Base ./client.jl:564
in expression starting at /PkgEval.jl/scripts/evaluate.jl:210

PkgEval crashed after 146.21s: GC corruption was detected


################################################################################
# Bug reporting
#

The package crashed during testing (reason=gc_corruption), but PkgEval was unable to
reproduce the crash under rr (status=fail, reason=test_errors).

For debugging, here is the tail end of the rr log:

> 
> The Python package sympy could not be imported by pyimport. Usually this means
> that you did not install sympy in the Python version being used by PyCall.
> 
> PyCall is currently configured to use the Julia-specific Python distribution
> installed by the Conda.jl package.  To install the sympy module, you can
> use `pyimport_conda("sympy", PKG)`, where PKG is the Anaconda
> package that contains the module sympy, or alternatively you can use the
> Conda package directly (via `using Conda` followed by `Conda.add` etcetera).
> 
> Alternatively, if you want to use a different Python distribution on your
> system, such as a system-wide Python (as opposed to the Julia-specific Python),
> you can re-configure PyCall with that Python.   As explained in the PyCall
> documentation, set ENV["PYTHON"] to the path/name of the python executable
> you want to use, run Pkg.build("PyCall"), and re-launch Julia.
> 
> ) <class 'ModuleNotFoundError'>
> ModuleNotFoundError("No module named 'sympy'")
> 
> Stacktrace:
>   [1] pyimport(name::String)
>     @ PyCall ~/.julia/packages/PyCall/1gn3u/src/PyCall.jl:558
>   [2] pyimport_conda(modulename::String, condapkg::String, channel::String)
>     @ PyCall ~/.julia/packages/PyCall/1gn3u/src/PyCall.jl:716
>   [3] pyimport_conda
>     @ ~/.julia/packages/PyCall/1gn3u/src/PyCall.jl:715 [inlined]
>   [4] __init__()
>     @ SymPy ~/.julia/packages/SymPy/GpwKA/src/SymPy.jl:130
>   [5] run_module_init(mod::Module, i::Int64)
>     @ Base ./loading.jl:1416
>   [6] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String)
>     @ Base ./loading.jl:1404
>   [7] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::Nothing, depmods::Vector{Any}; register::Bool)
>     @ Base ./loading.jl:1292
>   [8] _include_from_serialized
>     @ ./loading.jl:1246 [inlined]
>   [9] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128, stalecheck::Bool; reasons::Dict{String, Int64}, DEPOT_PATH::Vector{String})
>     @ Base ./loading.jl:2075
>  [10] __require_prelocked(pkg::Base.PkgId, env::String)
>     @ Base ./loading.jl:2600
>  [11] _require_prelocked(uuidkey::Base.PkgId, env::String)
>     @ Base ./loading.jl:2466
>  [12] macro expansion
>     @ ./loading.jl:2394 [inlined]
>  [13] macro expansion
>     @ ./lock.jl:376 [inlined]
>  [14] __require(into::Module, mod::Symbol)
>     @ Base ./loading.jl:2359
>  [15] require
>     @ ./loading.jl:2335 [inlined]
>  [16] eval_import_path
>     @ ./module.jl:36 [inlined]
>  [17] eval_import_path_all(at::Module, path::Expr, keyword::String)
>     @ Base ./module.jl:60
>  [18] _eval_using(to::Module, path::Expr)
>     @ Base ./module.jl:137
>  [19] top-level scope
>     @ ~/.julia/packages/SymFEL/Gz8D0/test/runtests.jl:1
>  [20] include(mapexpr::Function, mod::Module, _path::String)
>     @ Base ./Base.jl:310
>  [21] top-level scope
>     @ none:6
>  [22] eval(m::Module, e::Any)
>     @ Core ./boot.jl:489
>  [23] exec_options(opts::Base.JLOptions)
>     @ Base ./client.jl:297
>  [24] _start()
>     @ Base ./client.jl:564
> 
> Testing failed after 63.31s
> 
> ERROR: LoadError: Package SymFEL errored during testing
> Stacktrace:
>   [1] pkgerror(msg::String)
>     @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Types.jl:68
>   [2] test(ctx::Pkg.Types.Context, pkgs::Vector{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/v1.13/Pkg/src/Operations.jl:2421
>   [3] test
>     @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2276 [inlined]
>   [4] test(ctx::Pkg.Types.Context, pkgs::Vector{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::IOContext{IO}})
>     @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:498
>   [5] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd})
>     @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:164
>   [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd})
>     @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:152
>   [7] test
>     @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:152 [inlined]
>   [8] #test#81
>     @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:151 [inlined]
>   [9] top-level scope
>     @ /PkgEval.jl/scripts/evaluate.jl:217
>  [10] include(mod::Module, _path::String)
>     @ Base ./Base.jl:309
>  [11] exec_options(opts::Base.JLOptions)
>     @ Base ./client.jl:331
>  [12] _start()
>     @ Base ./client.jl:564
> in expression starting at /PkgEval.jl/scripts/evaluate.jl:210
> 
> PkgEval failed after 151.01s: package tests unexpectedly errored