Package evaluation of SIRIUS on Julia 1.10.9 (96dc2d8c45*) started at 2025-06-06T15:28:40.262


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

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 4.71s


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

Installing SIRIUS...
   Resolving package versions...
    Updating `~/.julia/environments/v1.10/Project.toml`
  [3581e6f0] + SIRIUS v0.1.0
    Updating `~/.julia/environments/v1.10/Manifest.toml`
  [ffbed154] + DocStringExtensions v0.9.4
  [692b3bcd] + JLLWrappers v1.7.0
  [0f8b85d8] + JSON3 v1.14.3
  [da04e1cc] + MPI v0.20.22
  [3da0fdf6] + MPIPreferences v0.1.11
  [51095b67] + OpenBLAS32 v0.1.0
  [69de0a69] + Parsers v2.8.3
  [eebad327] + PkgVersion v0.3.3
⌅ [aea7be01] + PrecompileTools v1.2.1
  [21216c6a] + Preferences v1.4.3
  [ae029012] + Requires v1.3.1
  [3581e6f0] + SIRIUS v0.1.0
  [856f2bd8] + StructTypes v1.11.0
  [5f6e5a8a] + COSTA_jll v2.2.2+0
  [f5851436] + FFTW_jll v3.3.11+0
⌅ [1b77fbbe] + GSL_jll v2.7.2+0
⌅ [0234f1f7] + HDF5_jll v1.14.3+3
  [e33a78d0] + Hwloc_jll v2.12.1+0
  [1d63c593] + LLVMOpenMP_jll v18.1.8+0
  [a56a6d9d] + Libxc_jll v7.0.0+0
  [7cb0a576] + MPICH_jll v4.3.0+1
  [f1f71cc9] + MPItrampoline_jll v5.5.3+0
  [9237b28f] + MicrosoftMPI_jll v10.1.4+3
⌅ [656ef2d0] + OpenBLAS32_jll v0.3.24+0
⌅ [fe0851c0] + OpenMPI_jll v4.1.8+1
  [458c3c95] + OpenSSL_jll v3.5.0+0
  [6b659922] + SIRIUS_jll v7.6.1+0
  [8be71ea8] + SpFFT_jll v1.1.0+0
  [477f73a3] + libaec_jll v1.1.3+0
  [ef860afa] + pugixml_jll v1.14.1+0
  [ac4a9f1e] + spglib_jll v2.4.0+0
  [c0b6e1fa] + spla_jll v1.6.1+0
  [0dad84c5] + ArgTools v1.1.1
  [56f22d72] + Artifacts
  [2a0f44e3] + Base64
  [ade2ca70] + Dates
  [8ba89e20] + Distributed
  [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
  [fa267f1f] + TOML v1.0.3
  [a4e569a6] + Tar v1.10.0
  [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
  [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. To see why use `status --outdated -m`

Installation completed after 17.46s


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

Precompiling PkgEval dependencies...

Precompiling package dependencies...
ERROR: LoadError: The following 1 direct dependency failed to precompile:

SIRIUS 

Failed to precompile SIRIUS [3581e6f0-5a2a-4fbf-9499-336905df69aa] to "/home/pkgeval/.julia/compiled/v1.10/SIRIUS/jl_aDr7BA".
ERROR: LoadError: InitError: could not load library "/home/pkgeval/.julia/artifacts/a8272b4931ee4a7857ac2e4d53ee5152370930a8/lib/libsirius.so"
libxc.so.12: cannot open shared object file: No such file or directory
Stacktrace:
  [1] dlopen(s::String, flags::UInt32; throw_error::Bool)
    @ Base.Libc.Libdl ./libdl.jl:117
  [2] dlopen(s::String, flags::UInt32)
    @ Base.Libc.Libdl ./libdl.jl:116
  [3] macro expansion
    @ ~/.julia/packages/JLLWrappers/GfYNv/src/products/library_generators.jl:63 [inlined]
  [4] __init__()
    @ SIRIUS_jll ~/.julia/packages/SIRIUS_jll/dM808/src/wrappers/x86_64-linux-gnu-libgfortran5-cxx11-mpi+mpich.jl:19
  [5] run_module_init(mod::Module, i::Int64)
    @ Base ./loading.jl:1193
  [6] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String)
    @ Base ./loading.jl:1181
  [7] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::Nothing, depmods::Vector{Any})
    @ Base ./loading.jl:1126
  [8] _tryrequire_from_serialized(pkg::Base.PkgId, path::String, ocachepath::Nothing)
    @ Base ./loading.jl:1601
  [9] _require(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2060
 [10] __require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:1882
 [11] #invoke_in_world#3
    @ ./essentials.jl:926 [inlined]
 [12] invoke_in_world
    @ ./essentials.jl:923 [inlined]
 [13] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:1873
 [14] macro expansion
    @ ./loading.jl:1860 [inlined]
 [15] macro expansion
    @ ./lock.jl:267 [inlined]
 [16] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:1823
 [17] #invoke_in_world#3
    @ ./essentials.jl:926 [inlined]
 [18] invoke_in_world
    @ ./essentials.jl:923 [inlined]
 [19] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:1816
 [20] include
    @ ./Base.jl:495 [inlined]
 [21] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
    @ Base ./loading.jl:2292
 [22] top-level scope
    @ stdin:4
during initialization of module SIRIUS_jll
in expression starting at /home/pkgeval/.julia/packages/SIRIUS/ebgHq/src/SIRIUS.jl:1
in expression starting at stdin:
in expression starting at /PkgEval.jl/scripts/precompile.jl:37

Precompilation failed after 47.34s



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

     Testing SIRIUS
      Status `/tmp/jl_WtdkP7/Project.toml`
  [0f8b85d8] JSON3 v1.14.3
  [da04e1cc] MPI v0.20.22
  [51095b67] OpenBLAS32 v0.1.0
  [3581e6f0] SIRIUS v0.1.0
  [f8b46487] TestItemRunner v1.1.0
  [6b659922] SIRIUS_jll v7.6.1+0
  [8f399da3] Libdl
  [8dfed614] Test
      Status `/tmp/jl_WtdkP7/Manifest.toml`
  [ffbed154] DocStringExtensions v0.9.4
  [692b3bcd] JLLWrappers v1.7.0
  [0f8b85d8] JSON3 v1.14.3
  [da04e1cc] MPI v0.20.22
  [3da0fdf6] MPIPreferences v0.1.11
  [51095b67] OpenBLAS32 v0.1.0
  [69de0a69] Parsers v2.8.3
  [eebad327] PkgVersion v0.3.3
⌅ [aea7be01] PrecompileTools v1.2.1
  [21216c6a] Preferences v1.4.3
  [ae029012] Requires v1.3.1
  [3581e6f0] SIRIUS v0.1.0
  [856f2bd8] StructTypes v1.11.0
  [f8b46487] TestItemRunner v1.1.0
  [1c621080] TestItems v1.0.0
  [5f6e5a8a] COSTA_jll v2.2.2+0
  [f5851436] FFTW_jll v3.3.11+0
⌅ [1b77fbbe] GSL_jll v2.7.2+0
⌅ [0234f1f7] HDF5_jll v1.14.3+3
  [e33a78d0] Hwloc_jll v2.12.1+0
  [1d63c593] LLVMOpenMP_jll v18.1.8+0
  [a56a6d9d] Libxc_jll v7.0.0+0
  [7cb0a576] MPICH_jll v4.3.0+1
  [f1f71cc9] MPItrampoline_jll v5.5.3+0
  [9237b28f] MicrosoftMPI_jll v10.1.4+3
⌅ [656ef2d0] OpenBLAS32_jll v0.3.24+0
⌅ [fe0851c0] OpenMPI_jll v4.1.8+1
  [458c3c95] OpenSSL_jll v3.5.0+0
  [6b659922] SIRIUS_jll v7.6.1+0
  [8be71ea8] SpFFT_jll v1.1.0+0
  [477f73a3] libaec_jll v1.1.3+0
  [ef860afa] pugixml_jll v1.14.1+0
  [ac4a9f1e] spglib_jll v2.4.0+0
  [c0b6e1fa] spla_jll v1.6.1+0
  [0dad84c5] ArgTools v1.1.1
  [56f22d72] Artifacts
  [2a0f44e3] Base64
  [ade2ca70] Dates
  [8ba89e20] Distributed
  [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
  [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
  [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...
ERROR: LoadError: InitError: could not load library "/home/pkgeval/.julia/artifacts/a8272b4931ee4a7857ac2e4d53ee5152370930a8/lib/libsirius.so"
libxc.so.12: cannot open shared object file: No such file or directory
Stacktrace:
  [1] dlopen(s::String, flags::UInt32; throw_error::Bool)
    @ Base.Libc.Libdl ./libdl.jl:117
  [2] dlopen(s::String, flags::UInt32)
    @ Base.Libc.Libdl ./libdl.jl:116
  [3] macro expansion
    @ ~/.julia/packages/JLLWrappers/GfYNv/src/products/library_generators.jl:63 [inlined]
  [4] __init__()
    @ SIRIUS_jll ~/.julia/packages/SIRIUS_jll/dM808/src/wrappers/x86_64-linux-gnu-libgfortran5-cxx11-mpi+mpich.jl:19
  [5] run_module_init(mod::Module, i::Int64)
    @ Base ./loading.jl:1193
  [6] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String)
    @ Base ./loading.jl:1181
  [7] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::Nothing, depmods::Vector{Any})
    @ Base ./loading.jl:1126
  [8] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128)
    @ Base ./loading.jl:1651
  [9] _require(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2008
 [10] __require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:1882
 [11] #invoke_in_world#3
    @ ./essentials.jl:926 [inlined]
 [12] invoke_in_world
    @ ./essentials.jl:923 [inlined]
 [13] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:1873
 [14] macro expansion
    @ ./loading.jl:1860 [inlined]
 [15] macro expansion
    @ ./lock.jl:267 [inlined]
 [16] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:1823
 [17] #invoke_in_world#3
    @ ./essentials.jl:926 [inlined]
 [18] invoke_in_world
    @ ./essentials.jl:923 [inlined]
 [19] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:1816
 [20] include
    @ ./Base.jl:495 [inlined]
 [21] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::String)
    @ Base ./loading.jl:2292
 [22] top-level scope
    @ stdin:4
during initialization of module SIRIUS_jll
in expression starting at /home/pkgeval/.julia/packages/SIRIUS/ebgHq/src/SIRIUS.jl:1
in expression starting at stdin:4
ERROR: LoadError: Failed to precompile SIRIUS [3581e6f0-5a2a-4fbf-9499-336905df69aa] to "/home/pkgeval/.julia/compiled/v1.10/SIRIUS/jl_yuUPkR".
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:35
  [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool)
    @ Base ./loading.jl:2539
  [3] compilecache
    @ ./loading.jl:2411 [inlined]
  [4] (::Base.var"#971#972"{Base.PkgId})()
    @ Base ./loading.jl:2044
  [5] mkpidlock(f::Base.var"#971#972"{Base.PkgId}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool})
    @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.10/FileWatching/src/pidfile.jl:93
  [6] #mkpidlock#6
    @ /opt/julia/share/julia/stdlib/v1.10/FileWatching/src/pidfile.jl:88 [inlined]
  [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64})
    @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.10/FileWatching/src/pidfile.jl:111
  [8] #invokelatest#2
    @ ./essentials.jl:894 [inlined]
  [9] invokelatest
    @ ./essentials.jl:889 [inlined]
 [10] maybe_cachefile_lock(f::Base.var"#971#972"{Base.PkgId}, pkg::Base.PkgId, srcpath::String; stale_age::Int64)
    @ Base ./loading.jl:3054
 [11] maybe_cachefile_lock
    @ ./loading.jl:3051 [inlined]
 [12] _require(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2040
 [13] __require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:1882
 [14] #invoke_in_world#3
    @ ./essentials.jl:926 [inlined]
 [15] invoke_in_world
    @ ./essentials.jl:923 [inlined]
 [16] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:1873
 [17] macro expansion
    @ ./loading.jl:1860 [inlined]
 [18] macro expansion
    @ ./lock.jl:267 [inlined]
 [19] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:1823
 [20] #invoke_in_world#3
    @ ./essentials.jl:926 [inlined]
 [21] invoke_in_world
    @ ./essentials.jl:923 [inlined]
 [22] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:1816
 [23] eval
    @ ./boot.jl:385 [inlined]
 [24] run_testitem(filepath::String, use_default_usings::Bool, setups::Vector{Symbol}, package_name::String, original_code::String, line::Int64, column::Int64, test_setup_module_set::TestItemRunner.TestSetupModuleSet, testsetups::Dict{Symbol, Any})
    @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:94
 [25] run_tests(path::String; filter::Nothing, verbose::Bool)
    @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:221
 [26] top-level scope
    @ ~/.julia/packages/SIRIUS/ebgHq/test/runtests_runner.jl:3
in expression starting at /home/pkgeval/.julia/packages/SIRIUS/ebgHq/test/runtests_runner.jl:3
ERROR: LoadError: failed process: Process(`/opt/julia/bin/julia -C native -J/opt/julia/lib/julia/sys.so --depwarn=yes --check-bounds=yes -g1 --startup-file=no --pkgimages=no /home/pkgeval/.julia/packages/SIRIUS/ebgHq/test/runtests_runner.jl`, ProcessExited(1)) [1]

Stacktrace:
 [1] pipeline_error
   @ ./process.jl:565 [inlined]
 [2] run(::Cmd; wait::Bool)
   @ Base ./process.jl:480
 [3] run(::Cmd)
   @ Base ./process.jl:477
 [4] top-level scope
   @ ~/.julia/packages/SIRIUS/ebgHq/test/runtests.jl:36
 [5] include(fname::String)
   @ Base.MainInclude ./client.jl:494
 [6] top-level scope
   @ none:6
in expression starting at /home/pkgeval/.julia/packages/SIRIUS/ebgHq/test/runtests.jl:33

Testing failed after 50.66s

ERROR: LoadError: Package SIRIUS errored during testing
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 failed after 140.91s: package requires a missing binary dependency