Package evaluation to test ManifoldLearning on Julia 1.14.0-DEV.2086 (d19eac062f*) started at 2026-04-30T18:16:03.761 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.14` Set-up completed after 13.86s ################################################################################ # Installation # Installing ManifoldLearning... Resolving package versions... Installed ArnoldiMethod ─────── v0.4.0 Installed OrderedCollections ── v1.8.1 Installed DataAPI ───────────── v1.16.0 Installed Compat ────────────── v4.18.1 Installed StatsBase ─────────── v0.33.21 Installed MultivariateStats ─── v0.9.0 Installed MacroTools ────────── v0.5.16 Installed DataStructures ────── v0.18.22 Installed Combinatorics ─────── v1.1.0 Installed ManifoldLearning ──── v0.9.0 Installed Statistics ────────── v1.11.1 Installed StatsAPI ──────────── v1.8.0 Installed Arpack_jll ────────── v3.5.2+0 Installed SimpleTraits ──────── v0.9.5 Installed LogExpFunctions ───── v0.3.29 Installed Arpack ────────────── v0.5.4 Installed IrrationalConstants ─ v0.2.6 Installed StaticArraysCore ──── v1.4.4 Installed JLLWrappers ───────── v1.7.1 Installed Missings ──────────── v1.2.0 Installed StaticArrays ──────── v1.9.18 Installed Preferences ───────── v1.5.2 Installed PrecompileTools ───── v1.3.3 Installed SortingAlgorithms ─── v1.2.2 Installed Inflate ───────────── v0.1.5 Installed DocStringExtensions ─ v0.9.5 Installed Graphs ────────────── v1.13.1 Installing 1 artifacts Installed artifact Arpack 138.3 KiB Updating `~/.julia/environments/v1.14/Project.toml` [06eb3307] + ManifoldLearning v0.9.0 Updating `~/.julia/environments/v1.14/Manifest.toml` [ec485272] + ArnoldiMethod v0.4.0 [7d9fca2a] + Arpack v0.5.4 [861a8166] + Combinatorics v1.1.0 [34da2185] + Compat v4.18.1 [9a962f9c] + DataAPI v1.16.0 ⌅ [864edb3b] + DataStructures v0.18.22 [ffbed154] + DocStringExtensions v0.9.5 ⌃ [86223c79] + Graphs v1.13.1 [d25df0c9] + Inflate v0.1.5 [92d709cd] + IrrationalConstants v0.2.6 [692b3bcd] + JLLWrappers v1.7.1 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.16 [06eb3307] + ManifoldLearning v0.9.0 [e1d29d7a] + Missings v1.2.0 ⌅ [6f286f6a] + MultivariateStats v0.9.0 [bac558e1] + OrderedCollections v1.8.1 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.2 [699a6c99] + SimpleTraits v0.9.5 [a2af1166] + SortingAlgorithms v1.2.2 [90137ffa] + StaticArrays v1.9.18 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 ⌅ [2913bbd2] + StatsBase v0.33.21 ⌅ [68821587] + Arpack_jll v3.5.2+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.13.0 [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 [de0858da] + Printf 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 v1.13.0 [fa267f1f] + TOML v1.0.3 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.5.1+0 [4536629a] + OpenBLAS_jll v0.3.32+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [8e850b90] + libblastrampoline_jll v5.15.0+0 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. To see why use `status --outdated -m` Installation completed after 8.6s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling project... 4.6 s ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 27 already precompiled. Precompiling package dependencies... Precompiling project... 4.0 s ✓ MacroTools 1.1 s ✓ Statistics 0.9 s ✓ DataAPI 2.1 s ✓ IrrationalConstants 1.0 s ✓ StaticArraysCore 0.9 s ✓ StatsAPI 1.4 s ✓ OrderedCollections 0.9 s ✓ StableRNGs 1.1 s ✓ DocStringExtensions 2.0 s ✓ Combinatorics 1.1 s ✓ Inflate 1.1 s ✓ Compat 1.4 s ✓ Preferences 3.3 s ✓ SimpleTraits 1.4 s ✓ Statistics → SparseArraysExt 1.0 s ✓ Missings 1.3 s ✓ LogExpFunctions 0.9 s ✓ Compat → CompatLinearAlgebraExt 1.5 s ✓ JLLWrappers 1.2 s ✓ PrecompileTools 3.7 s ✓ DataStructures 2.2 s ✓ Arpack_jll 13.8 s ✓ StaticArrays 1.7 s ✓ SortingAlgorithms 1.7 s ✓ Arpack 1.7 s ✓ StaticArrays → StaticArraysStatisticsExt 3.9 s ✓ ArnoldiMethod 4.8 s ✓ StatsBase 10.2 s ✓ Graphs 3.7 s ✓ MultivariateStats 4.9 s ✓ ManifoldLearning 31 dependencies successfully precompiled in 82 seconds. 18 already precompiled. Precompilation completed after 111.09s ################################################################################ # Testing # Testing ManifoldLearning Status `/tmp/jl_kZ3wK9/Project.toml` [861a8166] Combinatorics v1.1.0 ⌃ [86223c79] Graphs v1.13.1 [06eb3307] ManifoldLearning v0.9.0 ⌅ [6f286f6a] MultivariateStats v0.9.0 [860ef19b] StableRNGs v1.0.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 [37e2e46d] LinearAlgebra v1.13.0 [9a3f8284] Random v1.11.0 [2f01184e] SparseArrays v1.13.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_kZ3wK9/Manifest.toml` [ec485272] ArnoldiMethod v0.4.0 [7d9fca2a] Arpack v0.5.4 [861a8166] Combinatorics v1.1.0 [34da2185] Compat v4.18.1 [9a962f9c] DataAPI v1.16.0 ⌅ [864edb3b] DataStructures v0.18.22 [ffbed154] DocStringExtensions v0.9.5 ⌃ [86223c79] Graphs v1.13.1 [d25df0c9] Inflate v0.1.5 [92d709cd] IrrationalConstants v0.2.6 [692b3bcd] JLLWrappers v1.7.1 [2ab3a3ac] LogExpFunctions v0.3.29 [1914dd2f] MacroTools v0.5.16 [06eb3307] ManifoldLearning v0.9.0 [e1d29d7a] Missings v1.2.0 ⌅ [6f286f6a] MultivariateStats v0.9.0 [bac558e1] OrderedCollections v1.8.1 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.2 [699a6c99] SimpleTraits v0.9.5 [a2af1166] SortingAlgorithms v1.2.2 [860ef19b] StableRNGs v1.0.4 [90137ffa] StaticArrays v1.9.18 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 ⌅ [2913bbd2] StatsBase v0.33.21 ⌅ [68821587] Arpack_jll v3.5.2+0 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.13.0 [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 [de0858da] Printf 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 v1.13.0 [fa267f1f] TOML v1.0.3 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.5.1+0 [4536629a] OpenBLAS_jll v0.3.32+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [8e850b90] libblastrampoline_jll v5.15.0+0 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. Testing Running tests... Test Summary: | Pass Total Time Nearest Neighbors | 45 45 40.6s Test Summary: | Pass Total Time Laplacian | 4 4 2.6s ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::Isomap{ManifoldLearning.BruteForce}) at interface.jl:61 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/interface.jl:61 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::LEM{ManifoldLearning.BruteForce, Float32}) at interface.jl:61 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/interface.jl:61 algorithm = LEM: Error During Test at /home/pkgeval/.julia/packages/ManifoldLearning/qUlAd/test/runtests.jl:90 Got exception outside of a @test ArgumentError: invalid argument #11 to LAPACK call Stacktrace: [1] getindex(A::Vector{Float64}, i::Int64) @ Base /opt/julia/share/julia/stdlib/v1.14/LinearAlgebra/src/lapack.jl:29 [inlined] [2] sygvd!(itype::Int64, jobz::Char, uplo::Char, A::Matrix{Float64}, B::Matrix{Float64}) @ LinearAlgebra.LAPACK /opt/julia/share/julia/stdlib/v1.14/LinearAlgebra/src/lapack.jl:5511 [3] getrowval(S::SparseArrays.SparseMatrixCSC{Float64, Int64}) @ SparseArrays /opt/julia/share/julia/stdlib/v1.14/LinearAlgebra/src/symmetriceigen.jl:254 [inlined] [4] _goodbuffers(S::SparseArrays.SparseMatrixCSC{Float64, Int64}) @ SparseArrays /opt/julia/share/julia/stdlib/v1.14/LinearAlgebra/src/symmetriceigen.jl:253 [inlined] [5] _checkbuffers(S::SparseArrays.SparseMatrixCSC{Float64, Int64}) @ SparseArrays /opt/julia/share/julia/stdlib/v1.14/LinearAlgebra/src/symmetriceigen.jl:250 [inlined] [6] (Matrix)(S::SparseArrays.SparseMatrixCSC{Float64, Int64}) @ SparseArrays /opt/julia/share/julia/stdlib/v1.14/LinearAlgebra/src/symmetriceigen.jl:248 [inlined] [7] decompose(A::SparseArrays.SparseMatrixCSC{Float64, Int64}, B::Matrix{Float64}, d::Int64; rev::Bool) @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/utils.jl:255 [8] iterate(z::Base.Iterators.Zip{Tuple{Vector{Int64}, Vector{Int64}, Vector{Float64}}}) @ Base.Iterators ~/.julia/packages/ManifoldLearning/qUlAd/src/utils.jl:252 [inlined] [9] fit(::Type{LEM}, X::Matrix{Float64}; k::Int64, maxoutdim::Int64, ε::Int64, laplacian::Symbol, nntype::Type) @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/lem.jl:77 [10] top-level scope @ ~/.julia/packages/ManifoldLearning/qUlAd/test/runtests.jl:84 [11] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2246 [inlined] [12] macro expansion @ ~/.julia/packages/ManifoldLearning/qUlAd/test/runtests.jl:90 [inlined] [13] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2327 [inlined] [14] macro expansion @ ~/.julia/packages/ManifoldLearning/qUlAd/test/runtests.jl:106 [inlined] [15] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:327 [16] top-level scope @ none:6 [17] eval(m::Module, e::Any) @ Core ./boot.jl:517 [18] exec_options(opts::Base.JLOptions) @ Base ./client.jl:318 [19] _start() @ Base ./client.jl:593 ┌ Warning: Found 3 connected components. Largest component is selected. └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/utils.jl:95 ┌ Warning: k > 3: regularization will be used └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/lle.jl:71 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::LLE{ManifoldLearning.BruteForce, Float32}) at interface.jl:61 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/interface.jl:61 ┌ Warning: k > 3: regularization will be used └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/lle.jl:71 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::LLE{ManifoldLearning.BruteForce, Float64}) at interface.jl:61 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/interface.jl:61 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::HLLE{ManifoldLearning.BruteForce, Float32}) at interface.jl:61 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/interface.jl:61 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::HLLE{ManifoldLearning.BruteForce, Float64}) at interface.jl:61 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/interface.jl:61 ┌ Warning: Found 3 connected components. Largest component is selected. └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/utils.jl:95 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::LTSA{ManifoldLearning.BruteForce, Float32}) at interface.jl:61 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/interface.jl:61 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::LTSA{ManifoldLearning.BruteForce, Float64}) at interface.jl:61 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/interface.jl:61 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::DiffMap{Float32}) at diffmaps.jl:43 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/diffmaps.jl:43 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::DiffMap{Float64}) at diffmaps.jl:43 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/diffmaps.jl:43 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::TSNE{ManifoldLearning.BruteForce, Float32}) at interface.jl:61 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/interface.jl:61 ┌ Warning: `transform(m)` is deprecated, use `predict(m)` instead. │ caller = show(io::IOBuffer, R::TSNE{ManifoldLearning.BruteForce, Float64}) at interface.jl:61 └ @ ManifoldLearning ~/.julia/packages/ManifoldLearning/qUlAd/src/interface.jl:61 Test Summary: | Pass Error Total Time Manifold Learning | 151 1 152 2m24.0s algorithm = Isomap | 18 18 45.0s algorithm = LEM | 13 1 14 17.7s L = sym | 2 2 0.2s L = rw | 2 2 0.0s algorithm = LLE | 18 18 21.8s algorithm = HLLE | 18 18 15.5s algorithm = LTSA | 18 18 4.9s algorithm = DiffMap | 54 54 9.8s algorithm = TSNE | 12 12 29.1s RNG of the outermost testset: Random.Xoshiro(0x72e916569deff55b, 0x1cb1a77c5fa0229b, 0xa9dc1c6c5d2ec5cb, 0x7e05bc516dcc30bc, 0x8c72c1238f4f8f47) ERROR: LoadError: Some tests did not pass: 151 passed, 0 failed, 1 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/ManifoldLearning/qUlAd/test/runtests.jl:82 ** On entry to DSYGVD parameter number 11 had an illegal value Testing failed after 205.11s ERROR: LoadError: Package ManifoldLearning errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{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/v1.14/Pkg/src/Operations.jl:3162 [3] Cmd(cmd::Cmd) @ Base /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:3025 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{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/v1.14/Pkg/src/API.jl:586 [5] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:172 [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [7] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [inlined] [8] test(pkg::String; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:159 [inlined] [9] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:223 [10] include(mod::Module, _path::String) @ Base ./Base.jl:326 [11] exec_options(opts::Base.JLOptions) @ Base ./client.jl:352 [12] _start() @ Base ./client.jl:593 in expression starting at /PkgEval.jl/scripts/evaluate.jl:214 PkgEval failed after 358.7s: package tests unexpectedly errored