Package evaluation of AdFem on Julia 1.13.0-DEV.943 (cce193b1aa*) started at 2025-08-02T08:55:05.421


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


Set-up completed after 0.28s


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

Installing AdFem...
   Resolving package versions...
   Installed Conda ── v1.10.2
   Installed CMake ── v1.2.0
   Installed PyCall ─ v1.96.4
   Installed HDF5 ─── v0.13.6
   Installed ADCME ── v0.6.7
   Installed AdFem ── v0.1.1
    Updating `~/.julia/environments/v1.13/Project.toml`
  [c10abcb9] + AdFem v0.1.1
    Updating `~/.julia/environments/v1.13/Manifest.toml`
⌅ [07b341a0] + ADCME v0.6.7
  [621f4979] + AbstractFFTs v1.5.0
  [c10abcb9] + AdFem v0.1.1
  [9e28174c] + BinDeps v1.0.2
  [a74b3585] + Blosc v0.7.3
  [e1450e63] + BufferedStreams v1.2.2
  [631607c0] + CMake v1.2.0
  [944b1d66] + CodecZlib v0.7.8
⌅ [3da002f7] + ColorTypes v0.11.5
⌃ [5ae59095] + Colors v0.12.11
  [8f4d0f93] + Conda v1.10.2
  [7a1cc6ca] + FFTW v1.9.0
  [53c48c17] + FixedPointNumbers v0.8.5
⌅ [f67ccb44] + HDF5 v0.13.6
  [692b3bcd] + JLLWrappers v1.7.1
  [682c06a0] + JSON v0.21.4
  [b964fa9f] + LaTeXStrings v1.4.0
⌅ [23992714] + MAT v0.8.1
  [3da0fdf6] + MPIPreferences v0.1.11
  [1914dd2f] + MacroTools v0.5.16
  [bac558e1] + OrderedCollections v1.8.1
  [d96e819e] + Parameters v0.12.3
  [69de0a69] + Parsers v2.8.3
  [aea7be01] + PrecompileTools v1.3.2
  [21216c6a] + Preferences v1.4.3
  [438e738f] + PyCall v1.96.4
  [d330b81b] + PyPlot v2.11.6
⌅ [189a3867] + Reexport v0.2.0
⌅ [276daf66] + SpecialFunctions v0.10.3
  [10745b16] + Statistics v1.11.1
  [3bb67fe8] + TranscodingStreams v0.11.3
  [30578b45] + URIParser v0.4.1
  [3a884ed6] + UnPack v1.0.2
  [81def892] + VersionParsing v1.3.0
  [0b7ba130] + Blosc_jll v1.21.7+0
  [f5851436] + FFTW_jll v3.3.11+0
  [0234f1f7] + HDF5_jll v1.14.6+0
  [e33a78d0] + Hwloc_jll v2.12.1+0
  [1d5cc7b8] + IntelOpenMP_jll v2025.2.0+0
  [5ced341a] + Lz4_jll v1.10.1+0
  [856f044c] + MKL_jll v2025.2.0+0
  [7cb0a576] + MPICH_jll v4.3.1+0
  [f1f71cc9] + MPItrampoline_jll v5.5.4+0
  [9237b28f] + MicrosoftMPI_jll v10.1.4+3
  [fe0851c0] + OpenMPI_jll v5.0.8+0
  [efe28fd5] + OpenSpecFun_jll v0.5.6+0
  [477f73a3] + libaec_jll v1.1.3+0
  [1317d2d5] + oneTBB_jll v2022.0.0+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
  [4af54fe1] + LazyArtifacts v1.11.0
  [b27032c2] + LibCURL v0.6.4
  [76f85450] + LibGit2 v1.11.0
  [8f399da3] + Libdl v1.11.0
  [37e2e46d] + LinearAlgebra v1.13.0
  [56ddb016] + Logging v1.11.0
  [d6f4376e] + Markdown v1.11.0
  [a63ad114] + Mmap v1.11.0
  [ca575930] + NetworkOptions v1.3.0
  [44cfe95a] + Pkg v1.13.0
  [de0858da] + Printf v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v0.7.0
  [9e88b42a] + Serialization v1.11.0
  [6462fe0b] + Sockets v1.11.0
  [2f01184e] + SparseArrays v1.13.0
  [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
  [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1
  [deac9b47] + LibCURL_jll v8.15.0+0
  [e37daf67] + LibGit2_jll v1.9.1+0
  [29816b5a] + LibSSH2_jll v1.11.3+1
  [14a3606d] + MozillaCACerts_jll v2025.7.15
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [458c3c95] + OpenSSL_jll v3.5.1+0
  [efcefdf7] + PCRE2_jll v10.45.0+0
  [bea87d4a] + SuiteSparse_jll v7.10.1+0
  [83775a58] + Zlib_jll v1.3.1+2
  [3161d3a3] + Zstd_jll v1.5.7+1
  [8e850b90] + libblastrampoline_jll v5.13.1+0
  [8e850ede] + nghttp2_jll v1.65.0+0
  [3f19e933] + p7zip_jll v17.5.0+2
        Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints 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`
    Building HDF5 ──→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/0713cbabdf855852dfab3ce6447c87145f3d9ea8/build.log`
    Building CMake ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/50a8b41d2c562fccd9ab841085fc7d1e2706da82/build.log`
    Building ADCME ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/0da04753658d14abee2062cee67209eb12e62df3/build.log`
    Building AdFem ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/de766a129f0ef5ca65af57e4e2b5bbac6d212f86/build.log`

Installation failed after 1293.06s

ERROR: LoadError: Error building `AdFem`: 
WARNING: method definition for #newton_raphson#39 at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/optim.jl:453 declares type variable T but does not use it.
WARNING: method definition for #newton_raphson_with_grad#49 at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/optim.jl:607 declares type variable T but does not use it.
WARNING: method definition for NonlinearConstrainedProblem at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/optim.jl:681 declares type variable T but does not use it.
WARNING: Method definition size(PyCall.PyObject) in module PyCall at /home/pkgeval/.julia/packages/PyCall/1gn3u/src/PyCall.jl:820 overwritten in module ADCME at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/variable.jl:214.
ERROR: Method overwriting is not permitted during Module precompilation. Use `__precompile__(false)` to opt-out of precompilation.
WARNING: method definition for #newton_raphson#39 at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/optim.jl:453 declares type variable T but does not use it.
WARNING: method definition for #newton_raphson_with_grad#49 at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/optim.jl:607 declares type variable T but does not use it.
WARNING: method definition for NonlinearConstrainedProblem at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/optim.jl:681 declares type variable T but does not use it.
ERROR: LoadError: TypeError: in ccall function name, expected Symbol, got a value of type Expr
Stacktrace:
  [1] top-level scope
    @ ~/.julia/packages/FFTW/r6EbH/src/providers.jl:68
  [2] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:312
  [3] top-level scope
    @ ~/.julia/packages/FFTW/r6EbH/src/FFTW.jl:17
  [4] include(mod::Module, _path::String)
    @ Base ./Base.jl:311
  [5] 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:3002
  [6] top-level scope
    @ stdin:5
  [7] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
  [8] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2848
  [9] include_string
    @ ./loading.jl:2858 [inlined]
 [10] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:318
 [11] _start()
    @ Base ./client.jl:553
in expression starting at /home/pkgeval/.julia/packages/FFTW/r6EbH/src/providers.jl:49
in expression starting at /home/pkgeval/.julia/packages/FFTW/r6EbH/src/FFTW.jl:1
in expression starting at stdin:5
Precompiling packages...
   1322.1 ms  ✓ BufferedStreams
   1168.8 ms  ✓ AbstractFFTs
    842.4 ms  ✓ Reexport
   1528.5 ms  ✓ FFTW_jll
   1647.5 ms  ✓ Blosc_jll
   4791.0 ms  ✓ IntelOpenMP_jll
   1565.2 ms  ✓ oneTBB_jll
   6700.7 ms  ✓ HDF5_jll
   1586.1 ms  ✓ Blosc
   5543.7 ms  ✓ MKL_jll
  14092.3 ms  ✓ HDF5
              ✗ FFTW
   7739.9 ms  ✓ MAT
Info Given ADCME was explicitly requested, output will be shown live 
WARNING: method definition for #newton_raphson#39 at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/optim.jl:453 declares type variable T but does not use it.
WARNING: method definition for #newton_raphson_with_grad#49 at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/optim.jl:607 declares type variable T but does not use it.
WARNING: method definition for NonlinearConstrainedProblem at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/optim.jl:681 declares type variable T but does not use it.
WARNING: Method definition size(PyCall.PyObject) in module PyCall at /home/pkgeval/.julia/packages/PyCall/1gn3u/src/PyCall.jl:820 overwritten in module ADCME at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/variable.jl:214.
ERROR: Method overwriting is not permitted during Module precompilation. Use `__precompile__(false)` to opt-out of precompilation.
   8964.3 ms  ? ADCME
  12 dependencies successfully precompiled in 62 seconds. 58 already precompiled.
  1 dependencies failed but may be precompilable after restarting julia
  2 dependencies had output during precompilation:
┌ HDF5
│  WARNING: Constructor for type "Array" was extended in `HDF5` without explicit qualification or import.
│    NOTE: Assumed "Array" refers to `Base.Array`. This behavior is deprecated and may differ in future versions.
│    NOTE: This behavior may have differed in Julia versions prior to 1.12.
│    Hint: If you intended to create a new generic function of the same name, use `function Array end`.
│    Hint: To silence the warning, qualify `Array` as `Base.Array` in the method signature or explicitly `import Base: Array`.
└  
┌ ADCME
│  [Output was shown above]
└  
Precompiling packages...
Info Given FFTW was explicitly requested, output will be shown live 
ERROR: LoadError: TypeError: in ccall function name, expected Symbol, got a value of type Expr
Stacktrace:
  [1] top-level scope
    @ ~/.julia/packages/FFTW/r6EbH/src/providers.jl:68
  [2] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:312
  [3] top-level scope
    @ ~/.julia/packages/FFTW/r6EbH/src/FFTW.jl:17
  [4] include(mod::Module, _path::String)
    @ Base ./Base.jl:311
  [5] 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:3002
  [6] top-level scope
    @ stdin:5
  [7] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
  [8] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2848
  [9] include_string
    @ ./loading.jl:2858 [inlined]
 [10] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:318
 [11] _start()
    @ Base ./client.jl:553
in expression starting at /home/pkgeval/.julia/packages/FFTW/r6EbH/src/providers.jl:49
in expression starting at /home/pkgeval/.julia/packages/FFTW/r6EbH/src/FFTW.jl:1
in expression starting at stdin:5
              ✗ FFTW
  0 dependencies successfully precompiled in 5 seconds. 35 already precompiled.
ERROR: LoadError: Failed to precompile FFTW [7a1cc6ca-52ef-59f5-83cd-3a7055c09341] to "/home/pkgeval/.julia/compiled/v1.13/FFTW/jl_QuUE7a" (ProcessExited(1)).
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:44
  [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing)
    @ Base ./loading.jl:3289
  [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool)
    @ Base ./loading.jl:3167
  [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId})()
    @ Base ./loading.jl:2654
  [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool})
    @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94
  [6] #mkpidlock#7
    @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined]
  [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64})
    @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115
  [8] #invokelatest_gr#235
    @ ./reflection.jl:1333 [inlined]
  [9] invokelatest_gr
    @ ./reflection.jl:1325 [inlined]
 [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId}, pkg::Base.PkgId, srcpath::String; stale_age::Int64)
    @ Base ./loading.jl:3860
 [11] maybe_cachefile_lock
    @ ./loading.jl:3857 [inlined]
 [12] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2640
 [13] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2468
 [14] macro expansion
    @ ./loading.jl:2396 [inlined]
 [15] macro expansion
    @ ./lock.jl:376 [inlined]
 [16] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2360
 [17] require
    @ ./loading.jl:2336 [inlined]
 [18] eval_import_path
    @ ./module.jl:36 [inlined]
 [19] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [20] _eval_import(::Bool, ::Module, ::Expr, ::Expr, ::Vararg{Expr})
    @ Base ./module.jl:101
 [21] top-level scope
    @ ~/.julia/packages/ADCME/hCmEo/src/ops.jl:6
 [22] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:312
 [23] top-level scope
    @ ~/.julia/packages/ADCME/hCmEo/src/ADCME.jl:86
 [24] include(mod::Module, _path::String)
    @ Base ./Base.jl:311
 [25] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2693
 [26] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2468
 [27] macro expansion
    @ ./loading.jl:2396 [inlined]
 [28] macro expansion
    @ ./lock.jl:376 [inlined]
 [29] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2360
 [30] require
    @ ./loading.jl:2336 [inlined]
 [31] eval_import_path
    @ ./module.jl:36 [inlined]
 [32] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [33] _eval_using(to::Module, path::Expr)
    @ Base ./module.jl:137
 [34] top-level scope
    @ ~/.julia/packages/AdFem/UvDr4/deps/build.jl:1
 [35] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:312
 [36] top-level scope
    @ none:5
 [37] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [38] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:286
 [39] _start()
    @ Base ./client.jl:553
in expression starting at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/ops.jl:6
in expression starting at /home/pkgeval/.julia/packages/ADCME/hCmEo/src/ADCME.jl:3
in expression starting at /home/pkgeval/.julia/packages/AdFem/UvDr4/deps/build.jl:1
Stacktrace:
  [1] pkgerror(msg::String)
    @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Types.jl:68
  [2] (::Pkg.Operations.var"#145#146"{Bool, Pkg.Types.Context, String, PackageSpec, String})()
    @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:1613
  [3] withenv(::Pkg.Operations.var"#145#146"{Bool, Pkg.Types.Context, String, PackageSpec, String}, ::Pair{String, String}, ::Vararg{Pair{String}})
    @ Base ./env.jl:265
  [4] (::Pkg.Operations.var"#208#209"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#145#146"{Bool, Pkg.Types.Context, String, PackageSpec, String}, Pkg.Types.Context, PackageSpec})()
    @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2468
  [5] with_temp_env(fn::Pkg.Operations.var"#208#209"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#145#146"{Bool, Pkg.Types.Context, String, PackageSpec, String}, Pkg.Types.Context, PackageSpec}, temp_env::String)
    @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2314
  [6] (::Pkg.Operations.var"#204#205"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#145#146"{Bool, Pkg.Types.Context, String, PackageSpec, String}, Pkg.Types.Context, PackageSpec, String, String})(tmp::String)
    @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2427
  [7] mktempdir(fn::Pkg.Operations.var"#204#205"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#145#146"{Bool, Pkg.Types.Context, String, PackageSpec, String}, Pkg.Types.Context, PackageSpec, String, String}, parent::String; prefix::String)
    @ Base.Filesystem ./file.jl:899
  [8] mktempdir(fn::Function, parent::String)
    @ Base.Filesystem ./file.jl:895
  [9] #sandbox#200
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2374 [inlined]
 [10] kwcall(::@NamedTuple{preferences::Dict{String, Any}, allow_reresolve::Bool}, ::typeof(Pkg.Operations.sandbox), fn::Function, ctx::Pkg.Types.Context, target::PackageSpec, sandbox_path::String, sandbox_project_override::Pkg.Types.Project)
    @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2364
 [11] build_versions(ctx::Pkg.Types.Context, uuids::Set{UUID}; verbose::Bool, allow_reresolve::Bool)
    @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:1590
 [12] build_versions
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:1502 [inlined]
 [13] add(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}, new_git::Set{UUID}; allow_autoprecomp::Bool, preserve::PreserveLevel, platform::Base.BinaryPlatforms.Platform, target::Symbol)
    @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:1946
 [14] add
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:1891 [inlined]
 [15] add(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; preserve::PreserveLevel, platform::Base.BinaryPlatforms.Platform, target::Symbol, allow_autoprecomp::Bool, kwargs::@Kwargs{io::IOContext{IO}})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:354
 [16] add(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:168
 [17] add(pkgs::Vector{PackageSpec})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:157
 [18] add(pkg::PackageSpec)
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:155
 [19] top-level scope
    @ /PkgEval.jl/scripts/evaluate.jl:112
 [20] include(mod::Module, _path::String)
    @ Base ./Base.jl:311
 [21] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:320
 [22] _start()
    @ Base ./client.jl:553
in expression starting at /PkgEval.jl/scripts/evaluate.jl:109

PkgEval skipped after 1351.0s: package could not be installed