Package evaluation to load Xtals on Julia 1.14.0-DEV.29 (7d6ae45e5a*) started at 2025-11-05T09:45:21.109 ################################################################################ # Set-up # Set-up completed after 0.1s ################################################################################ # Installation # Installing Xtals... Resolving package versions... Installed PeriodicTable ─────────────── v1.2.1 Installed MacroTools ────────────────── v0.5.16 Installed InlineStrings ─────────────── v1.4.5 Installed FilePathsBase ─────────────── v0.9.24 Installed ArnoldiMethod ─────────────── v0.4.0 Installed AtomsBase ─────────────────── v0.4.2 Installed DataStructures ────────────── v0.19.3 Installed JLD2 ──────────────────────── v0.4.55 Installed CodecZlib ─────────────────── v0.7.8 Installed Compat ────────────────────── v4.18.1 Installed OrderedCollections ────────── v1.8.1 Installed IteratorInterfaceExtensions ─ v1.0.0 Installed DataAPI ───────────────────── v1.16.0 Installed TranscodingStreams ────────── v0.11.3 Installed Statistics ────────────────── v1.11.1 Installed PrecompileSignatures ──────── v3.0.3 Installed DataValueInterfaces ───────── v1.0.0 Installed InvertedIndices ───────────── v1.3.1 Installed PrecompileTools ───────────── v1.3.3 Installed SentinelArrays ────────────── v1.4.8 Installed UnitfulAtomic ─────────────── v1.0.0 Installed FileIO ────────────────────── v1.17.1 Installed StaticArraysCore ──────────── v1.4.4 Installed StringManipulation ────────── v0.4.1 Installed Requires ──────────────────── v1.3.1 Installed SimpleTraits ──────────────── v0.9.5 Installed StaticArrays ──────────────── v1.9.15 Installed Parsers ───────────────────── v2.8.3 Installed Tables ────────────────────── v1.12.1 Installed Unitful ───────────────────── v1.25.1 Installed Reexport ──────────────────── v1.2.2 Installed PrettyTables ──────────────── v3.1.0 Installed MetaGraphs ────────────────── v0.7.2 Installed Xtals ─────────────────────── v0.5.1 Installed Preferences ───────────────── v1.5.0 Installed DataFrames ────────────────── v1.8.1 Installed Missings ──────────────────── v1.2.0 Installed WeakRefStrings ────────────── v1.4.2 Installed PooledArrays ──────────────── v1.4.3 Installed TableTraits ───────────────── v1.0.1 Installed Crayons ───────────────────── v4.1.1 Installed WorkerUtilities ───────────── v1.6.1 Installed SortingAlgorithms ─────────── v1.2.2 Installed LaTeXStrings ──────────────── v1.4.0 Installed Inflate ───────────────────── v0.1.5 Installed Graphs ────────────────────── v1.13.1 Installed CSV ───────────────────────── v0.10.15 Installed Bio3DView ─────────────────── v1.0.0 Updating `~/.julia/environments/v1.14/Project.toml` [ede5f01d] + Xtals v0.5.1 Updating `~/.julia/environments/v1.14/Manifest.toml` [ec485272] + ArnoldiMethod v0.4.0 ⌅ [a963bdd2] + AtomsBase v0.4.2 [99c8bb3a] + Bio3DView v1.0.0 [336ed68f] + CSV v0.10.15 [944b1d66] + CodecZlib v0.7.8 [34da2185] + Compat v4.18.1 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.1 [864edb3b] + DataStructures v0.19.3 [e2d170a0] + DataValueInterfaces v1.0.0 [5789e2e9] + FileIO v1.17.1 [48062228] + FilePathsBase v0.9.24 [86223c79] + Graphs v1.13.1 [d25df0c9] + Inflate v0.1.5 [842dd82b] + InlineStrings v1.4.5 [41ab1584] + InvertedIndices v1.3.1 [82899510] + IteratorInterfaceExtensions v1.0.0 ⌅ [033835bb] + JLD2 v0.4.55 [b964fa9f] + LaTeXStrings v1.4.0 [1914dd2f] + MacroTools v0.5.16 ⌅ [626554b9] + MetaGraphs v0.7.2 [e1d29d7a] + Missings v1.2.0 [bac558e1] + OrderedCollections v1.8.1 [69de0a69] + Parsers v2.8.3 [7b2266bf] + PeriodicTable v1.2.1 [2dfb63ee] + PooledArrays v1.4.3 [91cefc8d] + PrecompileSignatures v3.0.3 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.0 [08abe8d2] + PrettyTables v3.1.0 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [91c51154] + SentinelArrays v1.4.8 [699a6c99] + SimpleTraits v0.9.5 [a2af1166] + SortingAlgorithms v1.2.2 [90137ffa] + StaticArrays v1.9.15 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [892a3eda] + StringManipulation v0.4.1 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [3bb67fe8] + TranscodingStreams v0.11.3 [1986cc42] + Unitful v1.25.1 [a7773ee8] + UnitfulAtomic v1.0.0 [ea10d353] + WeakRefStrings v1.4.2 [76eceee3] + WorkerUtilities v1.6.1 [ede5f01d] + Xtals v0.5.1 [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 [9fa8497b] + Future 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 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays 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 [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 [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 8.56s ################################################################################ # 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... 3072.4 ms ✓ MacroTools 1245.8 ms ✓ InlineStrings 667.9 ms ✓ Reexport 932.1 ms ✓ Statistics 689.9 ms ✓ DataAPI 667.3 ms ✓ DataValueInterfaces 879.2 ms ✓ StaticArraysCore 1132.4 ms ✓ Requires 1774.9 ms ✓ OrderedCollections 946.5 ms ✓ InvertedIndices 2362.8 ms ✓ PrecompileSignatures 1093.4 ms ✓ Bio3DView 982.6 ms ✓ WorkerUtilities 1002.2 ms ✓ Inflate 1189.6 ms ✓ TranscodingStreams 665.5 ms ✓ IteratorInterfaceExtensions 875.0 ms ✓ LaTeXStrings 1804.6 ms ✓ Crayons 3030.7 ms ✓ SentinelArrays 28595.8 ms ✓ Unitful 913.5 ms ✓ Compat 1420.5 ms ✓ Preferences 3379.7 ms ✓ SimpleTraits 1301.1 ms ✓ Statistics → SparseArraysExt 954.2 ms ✓ Missings 1241.9 ms ✓ PooledArrays 8130.4 ms ✓ FileIO 3505.1 ms ✓ DataStructures 954.4 ms ✓ CodecZlib 820.5 ms ✓ TableTraits 2170.2 ms ✓ Unitful → PrintfExt 1080.7 ms ✓ Compat → CompatLinearAlgebraExt 1110.2 ms ✓ PrecompileTools 1092.7 ms ✓ SortingAlgorithms 1902.7 ms ✓ Tables 8052.2 ms ✓ UnitfulAtomic 6311.2 ms ✓ PeriodicTable 2260.1 ms ✓ FilePathsBase 12757.1 ms ✓ StaticArrays 2940.1 ms ✓ StringManipulation 15667.0 ms ✓ Parsers 39058.9 ms ✓ JLD2 952.7 ms ✓ FilePathsBase → FilePathsBaseMmapExt 1371.3 ms ✓ StaticArrays → StaticArraysStatisticsExt 3828.3 ms ✓ ArnoldiMethod 5600.9 ms ✓ AtomsBase 36092.8 ms ✓ PrettyTables 930.2 ms ✓ InlineStrings → ParsersExt 6980.6 ms ✓ Graphs 75732.8 ms ✓ DataFrames 2569.5 ms ✓ WeakRefStrings 9053.6 ms ✓ MetaGraphs 26334.7 ms ✓ CSV WARNING: Imported binding AtomsBase.boundary_conditions was undeclared at import time during import to Xtals. WARNING: Imported binding AtomsBase.species_type was undeclared at import time during import to Xtals. ERROR: LoadError: invalid method definition in Xtals: exported function AtomsBase.species_type does not exist Stacktrace:  [1] top-level scope  @ ~/.julia/packages/Xtals/paV65/src/crystal.jl:1364  [2] include(mapexpr::Function, mod::Module, _path::String)  @ Base ./Base.jl:310  [3] top-level scope  @ ~/.julia/packages/Xtals/paV65/src/Xtals.jl:22  [4] include(mod::Module, _path::String)  @ Base ./Base.jl:309  [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:3148  [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:2994  [9] include_string  @ ./loading.jl:3004 [inlined]  [10] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:342  [11] _start()  @ Base ./client.jl:577 in expression starting at /home/pkgeval/.julia/packages/Xtals/paV65/src/crystal.jl:1364 in expression starting at /home/pkgeval/.julia/packages/Xtals/paV65/src/Xtals.jl:1 in expression starting at stdin:5 Precompilation completed after 359.42s ################################################################################ # Loading # Loading Xtals... WARNING: Imported binding AtomsBase.boundary_conditions was undeclared at import time during import to Xtals. WARNING: Imported binding AtomsBase.species_type was undeclared at import time during import to Xtals. ERROR: LoadError: invalid method definition in Xtals: exported function AtomsBase.species_type does not exist Stacktrace:  [1] top-level scope  @ ~/.julia/packages/Xtals/paV65/src/crystal.jl:1364  [2] include(mapexpr::Function, mod::Module, _path::String)  @ Base ./Base.jl:310  [3] top-level scope  @ ~/.julia/packages/Xtals/paV65/src/Xtals.jl:22  [4] include(mod::Module, _path::String)  @ Base ./Base.jl:309  [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:3148  [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:2994  [9] include_string  @ ./loading.jl:3004 [inlined]  [10] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:342  [11] _start()  @ Base ./client.jl:577 in expression starting at /home/pkgeval/.julia/packages/Xtals/paV65/src/crystal.jl:1364 in expression starting at /home/pkgeval/.julia/packages/Xtals/paV65/src/Xtals.jl:1 in expression starting at stdin:5 1 dependency had output during precompilation: ┌ Xtals │ [Output was shown above] └ ERROR: The following 1 package failed to precompile: Xtals Failed to precompile Xtals [ede5f01d-793e-4c47-9885-c447d1f18d6d] to "/home/pkgeval/.julia/compiled/v1.14/Xtals/jl_jLDnJ1" (ProcessExited(1)). Loading failed after 20.57s 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 Xtals'`, 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 417.52s: package fails to precompile