Package evaluation of ArDCA on Julia 1.12.0-DEV.2044 (c78016e4dc*) started at 2025-02-25T23:16:59.859 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.87s ################################################################################ # Installation # Installing ArDCA... Resolving package versions... Installed NLopt_jll ──────────────────────── v2.10.0+0 Installed Adapt ──────────────────────────── v4.2.0 Installed SIMDTypes ──────────────────────── v0.1.0 Installed IrrationalConstants ────────────── v0.2.4 Installed BitTwiddlingConvenienceFunctions ─ v0.1.6 Installed OffsetArrays ───────────────────── v1.15.0 Installed Rmath ──────────────────────────── v0.8.0 Installed VectorizationBase ──────────────── v0.21.71 Installed LayoutPointers ─────────────────── v0.1.17 Installed CpuId ──────────────────────────── v0.3.1 Installed HypergeometricFunctions ────────── v0.3.27 Installed GZip ───────────────────────────── v0.6.2 Installed ArDCA ──────────────────────────── v0.6.5 Installed Preferences ────────────────────── v1.4.3 Installed PtrArrays ──────────────────────── v1.3.0 Installed NLopt ──────────────────────────── v1.1.3 Installed StatsFuns ──────────────────────── v1.3.2 Installed PDMats ─────────────────────────── v0.11.32 Installed CPUSummary ─────────────────────── v0.2.6 Installed SpecialFunctions ───────────────── v2.5.0 Installed DCAUtils ───────────────────────── v1.1.0 Installed DataAPI ────────────────────────── v1.16.0 Installed IfElse ─────────────────────────── v0.1.1 Installed JLLWrappers ────────────────────── v1.7.0 Installed HostCPUFeatures ────────────────── v0.1.17 Installed OrderedCollections ─────────────── v1.8.0 Installed ThreadingUtilities ─────────────── v0.5.2 Installed PrecompileTools ────────────────── v1.2.1 Installed LoopVectorization ──────────────── v0.12.171 Installed ManualMemory ───────────────────── v0.1.8 Installed CEnum ──────────────────────────── v0.5.0 Installed PolyesterWeave ─────────────────── v0.2.2 Installed ArrayInterface ─────────────────── v7.18.0 Installed QuadGK ─────────────────────────── v2.11.2 Installed Rmath_jll ──────────────────────── v0.5.1+0 Installed Reexport ───────────────────────── v1.2.2 Installed FillArrays ─────────────────────── v1.13.0 Installed Statistics ─────────────────────── v1.11.1 Installed DataStructures ─────────────────── v0.18.20 Installed LogExpFunctions ────────────────── v0.3.29 Installed Requires ───────────────────────── v1.3.0 Installed CloseOpenIntervals ─────────────── v0.1.13 Installed AliasTables ────────────────────── v1.1.3 Installed Static ─────────────────────────── v1.1.1 Installed OpenSpecFun_jll ────────────────── v0.5.6+0 Installed StatsAPI ───────────────────────── v1.7.0 Installed CommonWorldInvalidations ───────── v1.0.0 Installed UnPack ─────────────────────────── v1.0.2 Installed Compat ─────────────────────────── v4.16.0 Installed SLEEFPirates ───────────────────── v0.6.43 Installed StaticArrayInterface ───────────── v1.8.0 Installed Missings ───────────────────────── v1.2.0 Installed Distributions ──────────────────── v0.25.117 Installed ExtractMacro ───────────────────── v1.0.0 Installed StatsBase ──────────────────────── v0.34.4 Installed SortingAlgorithms ──────────────── v1.2.1 Installed DocStringExtensions ────────────── v0.9.3 Installed FastaIO ────────────────────────── v1.1.0 Installing 3 artifacts Installed artifact Rmath 121.9 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact NLopt 322.7 KiB Updating `~/.julia/environments/v1.12/Project.toml` [fc7e833f] + ArDCA v0.6.5 Updating `~/.julia/environments/v1.12/Manifest.toml` [79e6a3ab] + Adapt v4.2.0 [66dad0bd] + AliasTables v1.1.3 [fc7e833f] + ArDCA v0.6.5 [4fba245c] + ArrayInterface v7.18.0 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [fa961155] + CEnum v0.5.0 [2a0fbf3d] + CPUSummary v0.2.6 [fb6a15b2] + CloseOpenIntervals v0.1.13 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.16.0 [adafc99b] + CpuId v0.3.1 [e41cd558] + DCAUtils v1.1.0 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.20 [31c24e10] + Distributions v0.25.117 [ffbed154] + DocStringExtensions v0.9.3 [f86d3d12] + ExtractMacro v1.0.0 [a0c94c4b] + FastaIO v1.1.0 [1a297f60] + FillArrays v1.13.0 [92fee26a] + GZip v0.6.2 [3e5b6fbb] + HostCPUFeatures v0.1.17 [34004b35] + HypergeometricFunctions v0.3.27 [615f187c] + IfElse v0.1.1 [92d709cd] + IrrationalConstants v0.2.4 [692b3bcd] + JLLWrappers v1.7.0 [10f19ff3] + LayoutPointers v0.1.17 [2ab3a3ac] + LogExpFunctions v0.3.29 [bdcacae8] + LoopVectorization v0.12.171 [d125e4d3] + ManualMemory v0.1.8 [e1d29d7a] + Missings v1.2.0 [76087f3c] + NLopt v1.1.3 [6fe1bfb0] + OffsetArrays v1.15.0 [bac558e1] + OrderedCollections v1.8.0 [90014a1f] + PDMats v0.11.32 [1d0040c9] + PolyesterWeave v0.2.2 [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.0 [79098fc4] + Rmath v0.8.0 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [a2af1166] + SortingAlgorithms v1.2.1 [276daf66] + SpecialFunctions v2.5.0 [aedffcd0] + Static v1.1.1 [0d7ed370] + StaticArrayInterface v1.8.0 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.0 [2913bbd2] + StatsBase v0.34.4 [4c63d2b9] + StatsFuns v1.3.2 [8290d209] + ThreadingUtilities v0.5.2 [3a884ed6] + UnPack v1.0.2 [3d5dd08c] + VectorizationBase v0.21.71 [079eb43e] + NLopt_jll v2.10.0+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [d6f4376e] + Markdown v1.11.0 [ca575930] + NetworkOptions v1.3.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [2f01184e] + SparseArrays v1.12.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [e37daf67] + LibGit2_jll v1.9.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.5+0 [458c3c95] + OpenSSL_jll v3.0.16+0 [bea87d4a] + SuiteSparse_jll v7.8.3+2 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.12.0+0 Installation completed after 9.58s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 6493.5 ms ✓ TestEnv 1 dependency successfully precompiled in 9 seconds. 25 already precompiled. Precompiling package dependencies... Precompilation completed after 336.77s ################################################################################ # Testing # Testing ArDCA Status `/tmp/jl_GN7rce/Project.toml` [fc7e833f] ArDCA v0.6.5 [e41cd558] DCAUtils v1.1.0 [31c24e10] Distributions v0.25.117 [f86d3d12] ExtractMacro v1.0.0 [bdcacae8] LoopVectorization v0.12.171 [76087f3c] NLopt v1.1.3 [aea7be01] PrecompileTools v1.2.1 [37e2e46d] LinearAlgebra v1.12.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_GN7rce/Manifest.toml` [79e6a3ab] Adapt v4.2.0 [66dad0bd] AliasTables v1.1.3 [fc7e833f] ArDCA v0.6.5 [4fba245c] ArrayInterface v7.18.0 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [fa961155] CEnum v0.5.0 [2a0fbf3d] CPUSummary v0.2.6 [fb6a15b2] CloseOpenIntervals v0.1.13 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.16.0 [adafc99b] CpuId v0.3.1 [e41cd558] DCAUtils v1.1.0 [9a962f9c] DataAPI v1.16.0 [864edb3b] DataStructures v0.18.20 [31c24e10] Distributions v0.25.117 [ffbed154] DocStringExtensions v0.9.3 [f86d3d12] ExtractMacro v1.0.0 [a0c94c4b] FastaIO v1.1.0 [1a297f60] FillArrays v1.13.0 [92fee26a] GZip v0.6.2 [3e5b6fbb] HostCPUFeatures v0.1.17 [34004b35] HypergeometricFunctions v0.3.27 [615f187c] IfElse v0.1.1 [92d709cd] IrrationalConstants v0.2.4 [692b3bcd] JLLWrappers v1.7.0 [10f19ff3] LayoutPointers v0.1.17 [2ab3a3ac] LogExpFunctions v0.3.29 [bdcacae8] LoopVectorization v0.12.171 [d125e4d3] ManualMemory v0.1.8 [e1d29d7a] Missings v1.2.0 [76087f3c] NLopt v1.1.3 [6fe1bfb0] OffsetArrays v1.15.0 [bac558e1] OrderedCollections v1.8.0 [90014a1f] PDMats v0.11.32 [1d0040c9] PolyesterWeave v0.2.2 [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.4.3 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.0 [79098fc4] Rmath v0.8.0 [94e857df] SIMDTypes v0.1.0 [476501e8] SLEEFPirates v0.6.43 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.0 [aedffcd0] Static v1.1.1 [0d7ed370] StaticArrayInterface v1.8.0 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.0 [2913bbd2] StatsBase v0.34.4 [4c63d2b9] StatsFuns v1.3.2 [8290d209] ThreadingUtilities v0.5.2 [3a884ed6] UnPack v1.0.2 [3d5dd08c] VectorizationBase v0.21.71 [079eb43e] NLopt_jll v2.10.0+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.12.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [ca575930] NetworkOptions v1.3.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [2f01184e] SparseArrays v1.12.0 [f489334b] StyledStrings v1.11.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [e37daf67] LibGit2_jll v1.9.0+0 [29816b5a] LibSSH2_jll v1.11.3+1 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.5+0 [458c3c95] OpenSSL_jll v3.0.16+0 [bea87d4a] SuiteSparse_jll v7.8.3+2 [83775a58] Zlib_jll v1.3.1+2 [8e850b90] libblastrampoline_jll v5.12.0+0 Testing Running tests... WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in initialize_task(Any) at /home/pkgeval/.julia/packages/ThreadingUtilities/3z3g0/src/ThreadingUtilities.jl Running tests: WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in softmax!(Array{Float64, 1}, Array{Float64, 1}) at /home/pkgeval/.julia/packages/ArDCA/DMMzq/src/utils.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in _outputarnet!(Any, Any, Any, Any, Any, Any, Any) at /home/pkgeval/.julia/packages/ArDCA/DMMzq/src/types.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in _turbo_!(Base.Val{var"#UNROLL#"}, Base.Val{var"#OPS#"}, Base.Val{var"#ARF#"}, Base.Val{var"#AM#"}, Base.Val{var"#LPSYM#"}, Base.Val{Tuple{var"#LB#", var"#V#"}}, Vararg{Any, var"#num#vargs#"}) where {var"#UNROLL#", var"#OPS#", var"#ARF#", var"#AM#", var"#LPSYM#", var"#LB#", var"#V#", var"#num#vargs#"} at /home/pkgeval/.julia/packages/LoopVectorization/tIJUA/src/reconstruct_loopset.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in pslikeandgrad!(Array{Float64, 1}, Array{Float64, 1}, Int64, ArDCA.ArVar{Ti} where Ti<:Integer) at /home/pkgeval/.julia/packages/ArDCA/DMMzq/src/ar.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in l2norm_asym(Array{Float64, 1}, ArDCA.ArVar{Ti} where Ti<:Integer) at /home/pkgeval/.julia/packages/ArDCA/DMMzq/src/ar.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in fillvecene!(Array{Float64, 1}, Array{Float64, 1}, Int64, AbstractArray{Int64, 1}, Int64, Int64) at /home/pkgeval/.julia/packages/ArDCA/DMMzq/src/ar.jl testing N=2 q=2 permorder=NATURAL Δ=-187.4275591007593 [dB] Error During Test at /home/pkgeval/.julia/packages/ArDCA/DMMzq/test/testardca.jl:77 Test threw exception Expression: sum((ArDCA.siteloglikelihood_static(i, arnet, arvar) for i = 1:arvar.N)) ≈ loglikelihood(arnet, arvar) TaskFailedException nested task error: BoundsError: attempt to access 1-element Vector{Float64} at index [2] Stacktrace: [1] throw_boundserror(A::Vector{Float64}, I::Tuple{Int64}) @ Base ./essentials.jl:15 [2] getindex @ ./essentials.jl:917 [inlined] [3] macro expansion @ ~/.julia/packages/ArDCA/DMMzq/src/utils.jl:338 [inlined] [4] (::ArDCA.var"#siteloglikelihood_static##0#siteloglikelihood_static##1"{ArDCA.var"#siteloglikelihood_static##2#siteloglikelihood_static##3"{Vector{Float64}, Int64, Vector{Float64}, Matrix{Int64}, Vector{Float64}, UnitRange{Int64}}})(tid::Int64; onethread::Bool) @ ArDCA ./threadingconstructs.jl:276 [5] #siteloglikelihood_static##0 @ ./threadingconstructs.jl:243 [inlined] [6] (::Base.Threads.var"#threading_run##0#threading_run##1"{ArDCA.var"#siteloglikelihood_static##0#siteloglikelihood_static##1"{ArDCA.var"#siteloglikelihood_static##2#siteloglikelihood_static##3"{Vector{Float64}, Int64, Vector{Float64}, Matrix{Int64}, Vector{Float64}, UnitRange{Int64}}}, Int64})() @ Base.Threads ./threadingconstructs.jl:177 Stacktrace: [1] threading_run(fun::ArDCA.var"#siteloglikelihood_static##0#siteloglikelihood_static##1"{ArDCA.var"#siteloglikelihood_static##2#siteloglikelihood_static##3"{Vector{Float64}, Int64, Vector{Float64}, Matrix{Int64}, Vector{Float64}, UnitRange{Int64}}}, static::Bool) @ Base.Threads ./threadingconstructs.jl:196 [2] macro expansion @ ./threadingconstructs.jl:217 [inlined] [3] siteloglikelihood_static(i::Int64, arnet::ArNet, arvar::ArVar{Int64}) @ ArDCA ~/.julia/packages/ArDCA/DMMzq/src/utils.jl:336 [4] #5 @ ./none:-1 [inlined] [5] MappingRF @ ./reduce.jl:92 [inlined] [6] _foldl_impl(op::Base.MappingRF{Main.Test_testardca.TestDCA.var"#5#6"{ArVar{Int64}, ArNet}, Base.BottomRF{typeof(Base.add_sum)}}, init::Base._InitialValue, itr::UnitRange{Int64}) @ Base ./reduce.jl:50 [7] foldl_impl @ ./reduce.jl:40 [inlined] [8] mapfoldl_impl @ ./reduce.jl:36 [inlined] [9] mapfoldl @ ./reduce.jl:167 [inlined] [10] mapreduce @ ./reduce.jl:299 [inlined] [11] sum @ ./reduce.jl:524 [inlined] [12] sum @ ./reduce.jl:553 [inlined] [13] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 [inlined] [14] testDCA(N::Int64, q::Int64; verbose::Bool, epsconv::Float64, lambdaJ::Float64, lambdaH::Float64, maxit::Int64, method::Symbol, permorder::Symbol, dBthreshold::Int64) @ Main.Test_testardca.TestDCA ~/.julia/packages/ArDCA/DMMzq/test/testardca.jl:77 ERROR: LoadError: There was an error during testing in expression starting at /home/pkgeval/.julia/packages/ArDCA/DMMzq/test/testardca.jl:1 in expression starting at /home/pkgeval/.julia/packages/ArDCA/DMMzq/test/runtests.jl:11 Testing failed after 42.71s ERROR: LoadError: Package ArDCA errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Types.jl:68 [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/v1.12/Pkg/src/Operations.jl:2365 [3] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2220 [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::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:486 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:164 [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:152 [7] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:152 [inlined] [8] #test#81 @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:151 [inlined] [9] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [10] include(mod::Module, _path::String) @ Base ./Base.jl:307 [11] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [12] _start() @ Base ./client.jl:560 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 477.59s: package tests unexpectedly errored