Package evaluation to load DifferentiableMetabolism on Julia 1.14.0-DEV.29 (7d6ae45e5a*) started at 2025-11-05T09:42:36.983


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


Set-up completed after 0.11s


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

Installing DifferentiableMetabolism...
   Resolving package versions...
   Installed Bzip2_jll ───────────────── v1.0.9+0
   Installed DiffResults ─────────────── v1.1.0
   Installed CodecZlib ───────────────── v0.7.8
   Installed RuntimeGeneratedFunctions ─ v0.5.16
   Installed ConstructionBase ────────── v1.6.0
   Installed ForwardDiff ─────────────── v1.2.2
   Installed DataStructures ──────────── v0.18.22
   Installed MacroTools ──────────────── v0.5.16
   Installed Compat ──────────────────── v4.18.1
   Installed ExprTools ───────────────── v0.1.10
   Installed OrderedCollections ──────── v1.8.1
   Installed TranscodingStreams ──────── v0.11.3
   Installed Statistics ──────────────── v1.11.1
   Installed PrecompileTools ─────────── v1.3.3
   Installed StaticArraysCore ────────── v1.4.4
   Installed IrrationalConstants ─────── v0.2.6
   Installed CommonSubexpressions ────── v0.3.1
   Installed StructUtils ─────────────── v2.5.1
   Installed StaticArrays ────────────── v1.9.15
   Installed ConstraintTrees ─────────── v1.11.0
   Installed AbstractFBCModels ───────── v1.3.0
   Installed CodecBzip2 ──────────────── v0.8.5
   Installed NaNMath ─────────────────── v1.1.3
   Installed OpenSpecFun_jll ─────────── v0.5.6+0
   Installed JSON3 ───────────────────── v1.14.3
   Installed LogExpFunctions ─────────── v0.3.29
   Installed StableRNGs ──────────────── v1.0.3
   Installed DiffRules ───────────────── v1.15.1
   Installed JuMP ────────────────────── v1.29.2
   Installed Parsers ─────────────────── v2.8.3
   Installed FastDifferentiation ─────── v0.4.4
   Installed JSON ────────────────────── v1.2.0
   Installed JLLWrappers ─────────────── v1.7.1
   Installed DifferentiableMetabolism ── v0.3.1
   Installed SpecialFunctions ────────── v2.6.1
   Installed COBREXA ─────────────────── v2.9.1
   Installed StructTypes ─────────────── v1.11.0
   Installed BenchmarkTools ──────────── v1.6.3
   Installed MutableArithmetics ──────── v1.6.7
   Installed Preferences ─────────────── v1.5.0
   Installed DocStringExtensions ─────── v0.9.5
   Installed MathOptInterface ────────── v1.46.0
  Installing 2 artifacts
   Installed artifact OpenSpecFun 194.9 KiB
   Installed artifact Bzip2       503.5 KiB
    Updating `~/.julia/environments/v1.14/Project.toml`
  [9677e053] + DifferentiableMetabolism v0.3.1
    Updating `~/.julia/environments/v1.14/Manifest.toml`
  [5a4f3dfa] + AbstractFBCModels v1.3.0
  [6e4b80f9] + BenchmarkTools v1.6.3
  [babc4406] + COBREXA v2.9.1
  [523fee87] + CodecBzip2 v0.8.5
  [944b1d66] + CodecZlib v0.7.8
  [bbf7d656] + CommonSubexpressions v0.3.1
  [34da2185] + Compat v4.18.1
  [5515826b] + ConstraintTrees v1.11.0
  [187b0558] + ConstructionBase v1.6.0
⌅ [864edb3b] + DataStructures v0.18.22
  [163ba53b] + DiffResults v1.1.0
  [b552c78f] + DiffRules v1.15.1
  [9677e053] + DifferentiableMetabolism v0.3.1
  [ffbed154] + DocStringExtensions v0.9.5
  [e2ba6199] + ExprTools v0.1.10
  [eb9bf01b] + FastDifferentiation v0.4.4
  [f6369f11] + ForwardDiff v1.2.2
  [92d709cd] + IrrationalConstants v0.2.6
  [692b3bcd] + JLLWrappers v1.7.1
  [682c06a0] + JSON v1.2.0
  [0f8b85d8] + JSON3 v1.14.3
  [4076af6c] + JuMP v1.29.2
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [1914dd2f] + MacroTools v0.5.16
  [b8f27783] + MathOptInterface v1.46.0
  [d8a4904e] + MutableArithmetics v1.6.7
  [77ba4419] + NaNMath v1.1.3
  [bac558e1] + OrderedCollections v1.8.1
  [69de0a69] + Parsers v2.8.3
  [aea7be01] + PrecompileTools v1.3.3
  [21216c6a] + Preferences v1.5.0
  [7e49a35a] + RuntimeGeneratedFunctions v0.5.16
  [276daf66] + SpecialFunctions v2.6.1
  [860ef19b] + StableRNGs v1.0.3
  [90137ffa] + StaticArrays v1.9.15
  [1e83bf80] + StaticArraysCore v1.4.4
  [10745b16] + Statistics v1.11.1
  [856f2bd8] + StructTypes v1.11.0
  [ec057cc2] + StructUtils v2.5.1
  [3bb67fe8] + TranscodingStreams v0.11.3
  [6e34b625] + Bzip2_jll v1.0.9+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
  [8ba89e20] + Distributed 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 v1.0.0
  [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
  [9abbd945] + Profile v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v1.0.0
  [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 v8.16.0+0
  [e37daf67] + LibGit2_jll v1.9.1+0
  [29816b5a] + LibSSH2_jll v1.11.3+1
  [14a3606d] + MozillaCACerts_jll v2025.9.9
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [05823500] + OpenLibm_jll v0.8.7+0
  [458c3c95] + OpenSSL_jll v3.5.4+0
  [efcefdf7] + PCRE2_jll v10.47.0+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 v5.15.0+0
  [8e850ede] + nghttp2_jll v1.67.1+0
  [3f19e933] + p7zip_jll v17.6.0+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 11.2s


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# Precompilation
#

Precompiling PkgEval dependencies...
     Project No packages added to or removed from `~/.julia/environments/pkgeval/Project.toml`
    Manifest No packages added to or removed from `~/.julia/environments/pkgeval/Manifest.toml`

Precompiling package dependencies...
Precompiling packages...
   3950.5 ms  ✓ MacroTools
   1080.4 ms  ✓ Statistics
   1136.6 ms  ✓ ConstructionBase
   2006.0 ms  ✓ IrrationalConstants
    995.0 ms  ✓ StaticArraysCore
   1259.3 ms  ✓ OrderedCollections
    861.3 ms  ✓ StableRNGs
   1117.6 ms  ✓ DocStringExtensions
    857.6 ms  ✓ ExprTools
   1222.6 ms  ✓ TranscodingStreams
    990.8 ms  ✓ NaNMath
   1621.9 ms  ✓ StructTypes
   1469.7 ms  ✓ StructUtils
   1092.9 ms  ✓ Compat
   1113.8 ms  ✓ Preferences
  11347.1 ms  ✓ MutableArithmetics
   1677.7 ms  ✓ CommonSubexpressions
   1289.3 ms  ✓ Statistics → SparseArraysExt
    739.2 ms  ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt
    817.2 ms  ✓ DiffResults
   3897.4 ms  ✓ AbstractFBCModels
   1400.1 ms  ✓ LogExpFunctions
    836.4 ms  ✓ RuntimeGeneratedFunctions
    893.5 ms  ✓ CodecZlib
    779.3 ms  ✓ Compat → CompatLinearAlgebraExt
   1187.9 ms  ✓ JLLWrappers
    914.9 ms  ✓ PrecompileTools
   3848.7 ms  ✓ DataStructures
   1395.8 ms  ✓ Bzip2_jll
   1400.6 ms  ✓ OpenSpecFun_jll
  13395.1 ms  ✓ StaticArrays
  16318.8 ms  ✓ Parsers
   3341.3 ms  ✓ ConstraintTrees
    940.8 ms  ✓ CodecBzip2
   5012.5 ms  ✓ SpecialFunctions
   1626.6 ms  ✓ StaticArrays → StaticArraysStatisticsExt
   1713.0 ms  ✓ ConstructionBase → ConstructionBaseStaticArraysExt
  13930.6 ms  ✓ JSON3
   7021.6 ms  ✓ JSON
   1207.8 ms  ✓ DiffRules
   3356.2 ms  ✓ BenchmarkTools
   7105.0 ms  ✓ ForwardDiff
   9481.7 ms  ✓ FastDifferentiation
   1946.1 ms  ✓ ForwardDiff → ForwardDiffStaticArraysExt
  72249.5 ms  ✓ MathOptInterface
  53160.4 ms  ✓ JuMP
  17232.4 ms  ✓ COBREXA
ERROR: LoadError: cannot declare DifferentiableMetabolism.differentiate_prepare_kkt public; it is already declared exported
Stacktrace:
  [1] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
  [2] top-level scope
    @ ~/.julia/packages/DifferentiableMetabolism/Sjahv/src/DifferentiableMetabolism.jl:53
  [3] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
  [4] 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:3148
  [5] top-level scope
    @ stdin:5
  [6] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
  [7] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2994
  [8] include_string
    @ ./loading.jl:3004 [inlined]
  [9] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:342
 [10] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/DifferentiableMetabolism/Sjahv/src/public_api.jl:19
in expression starting at /home/pkgeval/.julia/packages/DifferentiableMetabolism/Sjahv/src/DifferentiableMetabolism.jl:19
in expression starting at stdin:5

Precompilation completed after 303.27s


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# Loading
#

Loading DifferentiableMetabolism...
ERROR: LoadError: cannot declare DifferentiableMetabolism.differentiate_prepare_kkt public; it is already declared exported
Stacktrace:
  [1] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
  [2] top-level scope
    @ ~/.julia/packages/DifferentiableMetabolism/Sjahv/src/DifferentiableMetabolism.jl:53
  [3] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
  [4] 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:3148
  [5] top-level scope
    @ stdin:5
  [6] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
  [7] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2994
  [8] include_string
    @ ./loading.jl:3004 [inlined]
  [9] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:342
 [10] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/DifferentiableMetabolism/Sjahv/src/public_api.jl:19
in expression starting at /home/pkgeval/.julia/packages/DifferentiableMetabolism/Sjahv/src/DifferentiableMetabolism.jl:19
in expression starting at stdin:5

  1 dependency had output during precompilation:
┌ DifferentiableMetabolism
│  [Output was shown above]
└  
ERROR: The following 1 package failed to precompile:

DifferentiableMetabolism 
Failed to precompile DifferentiableMetabolism [9677e053-0fc1-49e6-98a8-2ad3a1525e54] to "/home/pkgeval/.julia/compiled/v1.14/DifferentiableMetabolism/jl_Slk7GX" (ProcessExited(1)).


Loading failed after 23.4s

ERROR: LoadError: failed process: Process(`/opt/julia/bin/julia -C native -J/opt/julia/lib/julia/sys.so -g1 --check-bounds=yes --inline=yes --pkgimages=existing -e 'using DifferentiableMetabolism'`, ProcessExited(1)) [1]

Stacktrace:
 [1] pipeline_error
   @ ./process.jl:611 [inlined]
 [2] run(::Cmd; wait::Bool)
   @ Base ./process.jl:526
 [3] run(::Cmd)
   @ Base ./process.jl:523
 [4] top-level scope
   @ /PkgEval.jl/scripts/evaluate.jl:193
 [5] include(mod::Module, _path::String)
   @ Base ./Base.jl:309
 [6] exec_options(opts::Base.JLOptions)
   @ Base ./client.jl:344
 [7] _start()
   @ Base ./client.jl:577
in expression starting at /PkgEval.jl/scripts/evaluate.jl:184

PkgEval failed after 361.14s: package fails to precompile