Package evaluation to load SCTransform on Julia 1.14.0-DEV.29 (7d6ae45e5a*) started at 2025-11-05T10:21:50.090


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


Set-up completed after 0.1s


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

Installing SCTransform...
   Resolving package versions...
   Installed DiffResults ───────────────── v1.1.0
   Installed CompositionsBase ──────────── v0.1.2
   Installed MacroTools ────────────────── v0.5.16
   Installed CommonSolve ───────────────── v0.2.4
   Installed DataStructures ────────────── v0.18.22
   Installed FillArrays ────────────────── v1.14.0
   Installed ForwardDiff ───────────────── v1.2.2
   Installed StableHashTraits ──────────── v2.0.2
   Installed Adapt ─────────────────────── v4.4.0
   Installed DelimitedFiles ────────────── v1.9.1
   Installed ConstructionBase ──────────── v1.6.0
   Installed CodecZlib ─────────────────── v0.7.8
   Installed AliasTables ───────────────── v1.1.3
   Installed StatsBase ─────────────────── v0.34.7
   Installed SCTransform ───────────────── v0.3.1
   Installed Optim ─────────────────────── v1.13.2
   Installed OrderedCollections ────────── v1.8.1
   Installed ArrayInterface ────────────── v7.22.0
   Installed IteratorInterfaceExtensions ─ v1.0.0
   Installed TranscodingStreams ────────── v0.11.3
   Installed Compat ────────────────────── v4.18.1
   Installed DataAPI ───────────────────── v1.16.0
   Installed Statistics ────────────────── v1.11.1
   Installed PositiveFactorizations ────── v0.2.4
   Installed DataValueInterfaces ───────── v1.0.0
   Installed StatsAPI ──────────────────── v1.7.1
   Installed CommonSubexpressions ──────── v0.3.1
   Installed ProgressMeter ─────────────── v1.11.0
   Installed NaNMath ───────────────────── v1.1.3
   Installed IrrationalConstants ───────── v0.2.6
   Installed StaticArraysCore ──────────── v1.4.4
   Installed TupleTools ────────────────── v1.6.0
   Installed OpenSpecFun_jll ───────────── v0.5.6+0
   Installed Requires ──────────────────── v1.3.1
   Installed Tables ────────────────────── v1.12.1
   Installed DiffRules ─────────────────── v1.15.1
   Installed LogExpFunctions ───────────── v0.3.29
   Installed Parameters ────────────────── v0.12.3
   Installed FiniteDiff ────────────────── v2.29.0
   Installed Roots ─────────────────────── v2.2.10
   Installed PtrArrays ─────────────────── v1.3.0
   Installed EnumX ─────────────────────── v1.0.5
   Installed NLSolversBase ─────────────── v7.10.0
   Installed InverseFunctions ──────────── v0.1.17
   Installed Setfield ──────────────────── v1.1.2
   Installed SpecialFunctions ──────────── v2.6.1
   Installed Missings ──────────────────── v1.2.0
   Installed Preferences ───────────────── v1.5.0
   Installed Scratch ───────────────────── v1.3.0
   Installed JLLWrappers ───────────────── v1.7.1
   Installed TableTraits ───────────────── v1.0.1
   Installed UnPack ────────────────────── v1.0.2
   Installed StructTypes ───────────────── v1.11.0
   Installed LineSearches ──────────────── v7.4.0
   Installed SortingAlgorithms ─────────── v1.2.2
   Installed DocStringExtensions ───────── v0.9.5
   Installed ADTypes ───────────────────── v1.18.0
   Installed Accessors ─────────────────── v0.1.42
   Installed DifferentiationInterface ──── v0.7.10
   Installed KernelDensitySJ ───────────── v0.2.1
  Installing 1 artifacts
   Installed artifact OpenSpecFun 194.9 KiB
    Updating `~/.julia/environments/v1.14/Project.toml`
  [f56ea72b] + SCTransform v0.3.1
    Updating `~/.julia/environments/v1.14/Manifest.toml`
  [47edcb42] + ADTypes v1.18.0
  [7d9f7c33] + Accessors v0.1.42
  [79e6a3ab] + Adapt v4.4.0
  [66dad0bd] + AliasTables v1.1.3
  [4fba245c] + ArrayInterface v7.22.0
  [944b1d66] + CodecZlib v0.7.8
  [38540f10] + CommonSolve v0.2.4
  [bbf7d656] + CommonSubexpressions v0.3.1
  [34da2185] + Compat v4.18.1
  [a33af91c] + CompositionsBase v0.1.2
  [187b0558] + ConstructionBase v1.6.0
  [9a962f9c] + DataAPI v1.16.0
⌅ [864edb3b] + DataStructures v0.18.22
  [e2d170a0] + DataValueInterfaces v1.0.0
  [8bb1440f] + DelimitedFiles v1.9.1
  [163ba53b] + DiffResults v1.1.0
  [b552c78f] + DiffRules v1.15.1
  [a0c0ee7d] + DifferentiationInterface v0.7.10
  [ffbed154] + DocStringExtensions v0.9.5
  [4e289a0a] + EnumX v1.0.5
  [1a297f60] + FillArrays v1.14.0
  [6a86dc24] + FiniteDiff v2.29.0
  [f6369f11] + ForwardDiff v1.2.2
  [3587e190] + InverseFunctions v0.1.17
  [92d709cd] + IrrationalConstants v0.2.6
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [692b3bcd] + JLLWrappers v1.7.1
  [49dc5b4e] + KernelDensitySJ v0.2.1
  [d3d80556] + LineSearches v7.4.0
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [1914dd2f] + MacroTools v0.5.16
  [e1d29d7a] + Missings v1.2.0
  [d41bc354] + NLSolversBase v7.10.0
  [77ba4419] + NaNMath v1.1.3
  [429524aa] + Optim v1.13.2
  [bac558e1] + OrderedCollections v1.8.1
  [d96e819e] + Parameters v0.12.3
  [85a6dd25] + PositiveFactorizations v0.2.4
  [21216c6a] + Preferences v1.5.0
  [92933f4c] + ProgressMeter v1.11.0
  [43287f4e] + PtrArrays v1.3.0
  [ae029012] + Requires v1.3.1
  [f2b01f46] + Roots v2.2.10
  [f56ea72b] + SCTransform v0.3.1
  [6c6a2e73] + Scratch v1.3.0
  [efcf1570] + Setfield v1.1.2
  [a2af1166] + SortingAlgorithms v1.2.2
  [276daf66] + SpecialFunctions v2.6.1
  [c5dd0088] + StableHashTraits v2.0.2
  [1e83bf80] + StaticArraysCore v1.4.4
  [10745b16] + Statistics v1.11.1
  [82ae8749] + StatsAPI v1.7.1
  [2913bbd2] + StatsBase v0.34.7
  [856f2bd8] + StructTypes v1.11.0
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.12.1
  [3bb67fe8] + TranscodingStreams v0.11.3
  [9d95972d] + TupleTools v1.6.0
  [3a884ed6] + UnPack v1.0.2
  [efe28fd5] + OpenSpecFun_jll v0.5.6+0
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates v1.11.0
  [8ba89e20] + Distributed v1.11.0
  [9fa8497b] + Future v1.11.0
  [b77e0a4c] + InteractiveUtils v1.11.0
  [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0
  [8f399da3] + Libdl v1.11.0
  [37e2e46d] + LinearAlgebra v1.13.0
  [d6f4376e] + Markdown v1.11.0
  [a63ad114] + Mmap v1.11.0
  [de0858da] + Printf 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
  [cf7118a7] + UUIDs v1.11.0
  [4ec0a83e] + Unicode v1.11.0
  [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [05823500] + OpenLibm_jll v0.8.7+0
  [bea87d4a] + SuiteSparse_jll v7.10.1+0
  [83775a58] + Zlib_jll v1.3.1+2
  [8e850b90] + libblastrampoline_jll v5.15.0+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 10.61s


################################################################################
# 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...
   4246.6 ms  ✓ MacroTools
    925.1 ms  ✓ PositiveFactorizations
    753.6 ms  ✓ DataAPI
    986.2 ms  ✓ Statistics
    959.8 ms  ✓ ConstructionBase
   1729.2 ms  ✓ IrrationalConstants
    888.4 ms  ✓ UnPack
    831.9 ms  ✓ DataValueInterfaces
   1035.5 ms  ✓ StaticArraysCore
    835.5 ms  ✓ StatsAPI
   1139.3 ms  ✓ Requires
   1233.6 ms  ✓ OrderedCollections
    932.2 ms  ✓ InverseFunctions
   1382.8 ms  ✓ ADTypes
    851.6 ms  ✓ CompositionsBase
   1100.5 ms  ✓ DocStringExtensions
    862.3 ms  ✓ EnumX
   2117.3 ms  ✓ FillArrays
    803.8 ms  ✓ PtrArrays
   1029.3 ms  ✓ TupleTools
    792.2 ms  ✓ CommonSolve
   1298.1 ms  ✓ TranscodingStreams
    815.1 ms  ✓ IteratorInterfaceExtensions
   1127.5 ms  ✓ NaNMath
   1105.5 ms  ✓ DelimitedFiles
   1948.8 ms  ✓ ProgressMeter
    946.3 ms  ✓ Scratch
   1612.5 ms  ✓ StructTypes
   1151.9 ms  ✓ Compat
   1145.9 ms  ✓ Preferences
   1699.7 ms  ✓ CommonSubexpressions
    987.1 ms  ✓ Missings
   1323.8 ms  ✓ Statistics → SparseArraysExt
    775.2 ms  ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt
    890.6 ms  ✓ DiffResults
    954.5 ms  ✓ Adapt
    978.1 ms  ✓ Parameters
    869.7 ms  ✓ InverseFunctions → InverseFunctionsDatesExt
   1850.3 ms  ✓ DifferentiationInterface
    800.4 ms  ✓ ADTypes → ADTypesConstructionBaseExt
    826.2 ms  ✓ CompositionsBase → CompositionsBaseInverseFunctionsExt
   1402.7 ms  ✓ LogExpFunctions
   1554.2 ms  ✓ FillArrays → FillArraysSparseArraysExt
    964.7 ms  ✓ FillArrays → FillArraysStatisticsExt
    954.6 ms  ✓ AliasTables
    960.2 ms  ✓ CodecZlib
    772.6 ms  ✓ TableTraits
    830.8 ms  ✓ Compat → CompatLinearAlgebraExt
   1204.7 ms  ✓ JLLWrappers
   2904.3 ms  ✓ Setfield
   1147.8 ms  ✓ ArrayInterface
   1251.7 ms  ✓ Adapt → AdaptSparseArraysExt
   1339.6 ms  ✓ DifferentiationInterface → DifferentiationInterfaceSparseArraysExt
   4764.7 ms  ✓ Accessors
    825.0 ms  ✓ LogExpFunctions → LogExpFunctionsInverseFunctionsExt
   1704.9 ms  ✓ Tables
   3690.5 ms  ✓ DataStructures
   1458.1 ms  ✓ OpenSpecFun_jll
    794.4 ms  ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt
   1301.8 ms  ✓ ArrayInterface → ArrayInterfaceSparseArraysExt
   2555.3 ms  ✓ Accessors → LinearAlgebraExt
   1360.4 ms  ✓ StableHashTraits
   1575.4 ms  ✓ SortingAlgorithms
   4911.6 ms  ✓ SpecialFunctions
   1324.1 ms  ✓ FiniteDiff
   6512.5 ms  ✓ Roots
   5005.7 ms  ✓ StatsBase
   1356.3 ms  ✓ DiffRules
   1328.0 ms  ✓ FiniteDiff → FiniteDiffSparseArraysExt
   1142.3 ms  ✓ DifferentiationInterface → DifferentiationInterfaceFiniteDiffExt
   2030.8 ms  ✓ KernelDensitySJ
   6395.3 ms  ✓ ForwardDiff
   1972.2 ms  ✓ DifferentiationInterface → DifferentiationInterfaceForwardDiffExt
   1458.0 ms  ✓ Roots → RootsForwardDiffExt
   2314.0 ms  ✓ NLSolversBase
   5143.4 ms  ✓ LineSearches
   7744.1 ms  ✓ Optim
ERROR: LoadError: ArgumentError: Cannot load (`using/import`) module SHA into module SCTransform in package SCTransform
because package SCTransform does not have SHA in its dependencies:
- Note that the following manifests in the load path were resolved with a potentially
  different DEV version of the current version, which may be the cause of the error.
  Try to re-resolve them in the current version, or consider deleting them if that fails:
    /home/pkgeval/.julia/environments/v1.14/Manifest.toml
- You may have a partially installed environment. Try `Pkg.instantiate()`
  to ensure all packages in the environment are installed.
- Or, if you have SCTransform checked out for development and have
  added SHA as a dependency but haven't updated your primary
  environment's manifest file, try `Pkg.resolve()`.
- Otherwise you may need to report an issue with SCTransform
Stacktrace:
  [1] macro expansion
    @ ./loading.jl:2488 [inlined]
  [2] macro expansion
    @ ./lock.jl:376 [inlined]
  [3] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2468
  [4] require
    @ ./loading.jl:2444 [inlined]
  [5] eval_import_path
    @ ./module.jl:36 [inlined]
  [6] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
  [7] _eval_using
    @ ./module.jl:137 [inlined]
  [8] _eval_using(to::Module, path::Expr)
    @ Base ./module.jl:137
  [9] top-level scope
    @ ~/.julia/packages/SCTransform/OgRBw/src/SCTransform.jl:15
 [10] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [11] 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
 [12] top-level scope
    @ stdin:5
 [13] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [14] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2994
 [15] include_string
    @ ./loading.jl:3004 [inlined]
 [16] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:342
 [17] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/SCTransform/OgRBw/src/SCTransform.jl:1
in expression starting at stdin:5

Precompilation completed after 141.84s


################################################################################
# Loading
#

Loading SCTransform...
ERROR: LoadError: ArgumentError: Cannot load (`using/import`) module SHA into module SCTransform in package SCTransform
because package SCTransform does not have SHA in its dependencies:
- Note that the following manifests in the load path were resolved with a potentially
  different DEV version of the current version, which may be the cause of the error.
  Try to re-resolve them in the current version, or consider deleting them if that fails:
    /home/pkgeval/.julia/environments/v1.14/Manifest.toml
- You may have a partially installed environment. Try `Pkg.instantiate()`
  to ensure all packages in the environment are installed.
- Or, if you have SCTransform checked out for development and have
  added SHA as a dependency but haven't updated your primary
  environment's manifest file, try `Pkg.resolve()`.
- Otherwise you may need to report an issue with SCTransform
Stacktrace:
  [1] macro expansion
    @ ./loading.jl:2488 [inlined]
  [2] macro expansion
    @ ./lock.jl:376 [inlined]
  [3] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2468
  [4] require
    @ ./loading.jl:2444 [inlined]
  [5] eval_import_path
    @ ./module.jl:36 [inlined]
  [6] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
  [7] _eval_using
    @ ./module.jl:137 [inlined]
  [8] _eval_using(to::Module, path::Expr)
    @ Base ./module.jl:137
  [9] top-level scope
    @ ~/.julia/packages/SCTransform/OgRBw/src/SCTransform.jl:15
 [10] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [11] 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
 [12] top-level scope
    @ stdin:5
 [13] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [14] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2994
 [15] include_string
    @ ./loading.jl:3004 [inlined]
 [16] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:342
 [17] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/SCTransform/OgRBw/src/SCTransform.jl:1
in expression starting at stdin:5

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

SCTransform 
Failed to precompile SCTransform [f56ea72b-d1ea-403e-9c0c-95d94e8a8532] to "/home/pkgeval/.julia/compiled/v1.14/SCTransform/jl_B0QzbF" (ProcessExited(1)).


Loading failed after 7.72s

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 SCTransform'`, 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 182.36s: package fails to precompile