Package evaluation of RedClust on Julia 1.13.0-DEV.449 (8d6b63c3a6*) started at 2025-04-29T05:15:05.129 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 7.33s ################################################################################ # Installation # Installing RedClust... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [bf1adee6] + RedClust v1.2.2 Updating `~/.julia/environments/v1.13/Manifest.toml` [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.18.0 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [2a0fbf3d] + CPUSummary v0.2.6 [fb6a15b2] + CloseOpenIntervals v0.1.13 [aaaa29a8] + Clustering v0.15.8 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.16.0 [adafc99b] + CpuId v0.3.1 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.22 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.119 [ffbed154] + DocStringExtensions v0.9.4 [1a297f60] + FillArrays v1.13.0 [f67ccb44] + HDF5 v0.17.2 [3e5b6fbb] + HostCPUFeatures v0.1.17 [34004b35] + HypergeometricFunctions v0.3.28 [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 v0.12.172 [3da0fdf6] + MPIPreferences v0.1.11 [d125e4d3] + ManualMemory v0.1.8 [e1d29d7a] + Missings v1.2.0 [b8a86587] + NearestNeighbors v0.4.21 [6fe1bfb0] + OffsetArrays v1.17.0 [bac558e1] + OrderedCollections v1.8.0 [90014a1f] + PDMats v0.11.34 [1d0040c9] + PolyesterWeave v0.2.2 [aea7be01] + PrecompileTools v1.3.2 [21216c6a] + Preferences v1.4.3 [49802e3a] + ProgressBars v1.5.1 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [bf1adee6] + RedClust v1.2.2 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.8.0 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [a2af1166] + SortingAlgorithms v1.2.1 [276daf66] + SpecialFunctions v2.5.1 [aedffcd0] + Static v1.2.0 [0d7ed370] + StaticArrayInterface v1.8.0 [90137ffa] + StaticArrays v1.9.13 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.0 [2913bbd2] + StatsBase v0.34.4 [4c63d2b9] + StatsFuns v1.5.0 [8290d209] + ThreadingUtilities v0.5.3 [3a884ed6] + UnPack v1.0.2 [3d5dd08c] + VectorizationBase v0.21.71 [0234f1f7] + HDF5_jll v1.14.6+0 [e33a78d0] + Hwloc_jll v2.12.0+0 [7cb0a576] + MPICH_jll v4.3.0+1 [f1f71cc9] + MPItrampoline_jll v5.5.3+0 [9237b28f] + MicrosoftMPI_jll v10.1.4+3 [fe0851c0] + OpenMPI_jll v5.0.7+2 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [477f73a3] + libaec_jll v1.1.3+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 v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.12.0 [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 [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 v8.12.1+1 [e37daf67] + LibGit2_jll v1.9.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2024.12.31 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.5+0 [458c3c95] + OpenSSL_jll v3.0.16+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.12.0+0 [8e850ede] + nghttp2_jll v1.65.0+0 [3f19e933] + p7zip_jll v17.5.0+2 Installation completed after 7.84s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 168.65s ################################################################################ # Testing # Testing RedClust Status `/tmp/jl_ORBEM9/Project.toml` [aaaa29a8] Clustering v0.15.8 [bf1adee6] RedClust v1.2.2 [2913bbd2] StatsBase v0.34.4 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_ORBEM9/Manifest.toml` [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.18.0 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [2a0fbf3d] CPUSummary v0.2.6 [fb6a15b2] CloseOpenIntervals v0.1.13 [aaaa29a8] Clustering v0.15.8 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.16.0 [adafc99b] CpuId v0.3.1 [9a962f9c] DataAPI v1.16.0 [864edb3b] DataStructures v0.18.22 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.119 [ffbed154] DocStringExtensions v0.9.4 [1a297f60] FillArrays v1.13.0 [f67ccb44] HDF5 v0.17.2 [3e5b6fbb] HostCPUFeatures v0.1.17 [34004b35] HypergeometricFunctions v0.3.28 [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 v0.12.172 [3da0fdf6] MPIPreferences v0.1.11 [d125e4d3] ManualMemory v0.1.8 [e1d29d7a] Missings v1.2.0 [b8a86587] NearestNeighbors v0.4.21 [6fe1bfb0] OffsetArrays v1.17.0 [bac558e1] OrderedCollections v1.8.0 [90014a1f] PDMats v0.11.34 [1d0040c9] PolyesterWeave v0.2.2 [aea7be01] PrecompileTools v1.3.2 [21216c6a] Preferences v1.4.3 [49802e3a] ProgressBars v1.5.1 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [bf1adee6] RedClust v1.2.2 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [79098fc4] Rmath v0.8.0 [94e857df] SIMDTypes v0.1.0 [476501e8] SLEEFPirates v0.6.43 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.1 [aedffcd0] Static v1.2.0 [0d7ed370] StaticArrayInterface v1.8.0 [90137ffa] StaticArrays v1.9.13 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.0 [2913bbd2] StatsBase v0.34.4 [4c63d2b9] StatsFuns v1.5.0 [8290d209] ThreadingUtilities v0.5.3 [3a884ed6] UnPack v1.0.2 [3d5dd08c] VectorizationBase v0.21.71 [0234f1f7] HDF5_jll v1.14.6+0 [e33a78d0] Hwloc_jll v2.12.0+0 [7cb0a576] MPICH_jll v4.3.0+1 [f1f71cc9] MPItrampoline_jll v5.5.3+0 [9237b28f] MicrosoftMPI_jll v10.1.4+3 [fe0851c0] OpenMPI_jll v5.0.7+2 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [477f73a3] libaec_jll v1.1.3+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 v1.12.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.12.0 [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 [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 v8.12.1+1 [e37daf67] LibGit2_jll v1.9.0+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2024.12.31 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.5+0 [458c3c95] OpenSSL_jll v3.0.16+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.1+2 [8e850b90] libblastrampoline_jll v5.12.0+0 [8e850ede] nghttp2_jll v1.65.0+0 [3f19e933] p7zip_jll v17.5.0+2 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/nn4y1/src/ThreadingUtilities.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in matsum(AbstractArray{Float64, 2}) at /home/pkgeval/.julia/packages/RedClust/4YBK8/src/utils.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in matsum(AbstractArray{Float64, 2}, AbstractArray{Int64, 1}, AbstractArray{Int64, 1}) at /home/pkgeval/.julia/packages/RedClust/4YBK8/src/utils.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/ImqiY/src/reconstruct_loopset.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in vecsum(AbstractArray{Float64, 1}) at /home/pkgeval/.julia/packages/RedClust/4YBK8/src/utils.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in vecsum(AbstractArray{Float64, 1}, AbstractArray{Int64, 1}) at /home/pkgeval/.julia/packages/RedClust/4YBK8/src/utils.jl PriorHyperparamsList(1.0, 19.735503703311085, 1.0, 1.0, 97690.74333138987, 8559.254853994327, 0.49672299590145813, 2.1083435711318033, 0.4113660262275303, 0.4945758524830251, 2.475180591828654, 100, true, 0)Model Hyperparameters Likelihood Hyperparameters δ₁ = 1.000 δ₂ = 19.736 α = 1.000 β = 1.000 ζ = 97690.743 γ = 8559.255 Partition Prior Hyperparameters η = 4.967e-01 σ = 2.108 u = 4.946e-01 v = 2.475 Miscellaneous Hyperparameters Proposal standard deviation for sampling r = 4.114e-01 Repulsion is enabled? true Maximum number of clusters = none Initial number of clusters = 100 WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in loglik(RedClust.MCMCData, RedClust.MCMCState, RedClust.PriorHyperparamsList) at /home/pkgeval/.julia/packages/RedClust/4YBK8/src/mcmc.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in sample_labels_Gibbs!(RedClust.MCMCData, RedClust.MCMCState, RedClust.PriorHyperparamsList) at /home/pkgeval/.julia/packages/RedClust/4YBK8/src/mcmc.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in sample_labels_Gibbs_restricted!(RedClust.MCMCData, RedClust.MCMCState, RedClust.PriorHyperparamsList, Array{Int64, 1}, StaticArraysCore.SArray{Tuple{2}, Int64, 1, 2}, Array{Int64, 1}) at /home/pkgeval/.julia/packages/RedClust/4YBK8/src/mcmc.jl MCMC data : 100×100 dissimilarity matrix. MCMC data : 100×100 dissimilarity matrix. MCMCOptionsList(5000, 1000, 1, 5, 0, 4000)MCMC Options 5000 iterations 1000 burnin iterations 4000 samples 5 restricted Gibbs steps per split-merge step 0 split-merge steps per iteration MCMC result with 4000 samples MCMC Summary General 5000 iterations 1000 iterations discarded as burnin 4000 samples 5 restricted Gibbs steps per split-merge step 0 split-merge steps per iteration Acceptance rate for split-merge steps = 0.000e+00 Acceptance rate for sampling r = 3.862e-01 Using repulsion: true Maximum number of clusters allowed: any Runtime = 8.37 s Time per iteration : 1.67 ms Summary for K IAC : 6.800 ESS : 588.201 ESS per sample : 1.471e-01 Posterior mean : 12.370 Posterior variance : 5.447e-01 Summary for r IAC : 25.860 ESS : 154.681 ESS per sample : 3.867e-02 Posterior mean : 3.127 Posterior variance : 1.240 Summary for p IAC : 19.840 ESS : 201.617 ESS per sample : 5.040e-02 Posterior mean : 6.965e-01 Posterior variance : 4.762e-03 Test Summary: | Pass Total Time master | 83 83 7m00.2s Testing RedClust tests passed Testing completed after 451.74s PkgEval succeeded after 653.9s