Package evaluation to test CellularPotts on Julia 1.14.0-DEV.2275 (3ea3bac2a3*) started at 2026-06-03T06:05:38.279 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.14` Set-up completed after 15.38s ################################################################################ # Installation # Installing CellularPotts... Resolving package versions... Updating `~/.julia/environments/v1.14/Project.toml` [11b7dee7] + CellularPotts v0.3.6 Updating `~/.julia/environments/v1.14/Manifest.toml` [a4c015fc] + ANSIColoredPrinters v0.0.1 [1520ce14] + AbstractTrees v0.4.5 [66dad0bd] + AliasTables v1.1.3 [ec485272] + ArnoldiMethod v0.4.0 [d1d4a3ce] + BitFlags v0.1.10 [fa961155] + CEnum v0.5.0 [11b7dee7] + CellularPotts v0.3.6 [944b1d66] + CodecZlib v0.7.8 [35d6a980] + ColorSchemes v3.31.0 [3da002f7] + ColorTypes v0.12.1 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.1 [f0e56b4a] + ConcurrentUtilities v2.5.1 [d38c429a] + Contour v0.6.3 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.19.5 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [ffbed154] + DocStringExtensions v0.9.5 [e30172f5] + Documenter v1.17.0 [460bff9d] + ExceptionUnwrapping v0.1.11 [c87230d0] + FFMPEG v0.4.5 [53c48c17] + FixedPointNumbers v0.8.5 [1fa38f19] + Format v1.3.7 [28b8d3ca] + GR v0.73.24 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LibCURL_jll v8.20.0+1 [e37daf67] + LibGit2_jll v1.9.4+0 [29816b5a] + LibSSH2_jll v1.11.101+0 [14a3606d] + MozillaCACerts_jll v2026.5.14 [4536629a] + OpenBLAS_jll v0.3.33+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.6+0 [efcefdf7] + PCRE2_jll v10.47.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.2+0 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850b90] + libblastrampoline_jll v5.15.0+0 [8e850ede] + nghttp2_jll v1.69.0+0 [3f19e933] + p7zip_jll v17.8.0+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 To see why use `status --outdated -m` Installation completed after 6.18s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... ┌ Warning: Could not use exact versions of packages in manifest, re-resolving └ @ TestEnv ~/.julia/packages/TestEnv/RUPmD/src/julia-1.13/activate_set.jl:78 Precompiling package dependencies... Precompiling project... 2.4 s ✓ RecursiveArrayTools → RecursiveArrayToolsFastBroadcastExt 22.4 s ✓ SciMLBase 22.2 s ✓ CellularPotts 4.5 s ✓ SciMLBase → SciMLBaseStaticArraysExt 4.3 s ✓ SciMLBase → SciMLBaseForwardDiffExt 3.7 s ✓ SciMLBase → SciMLBaseDifferentiationInterfaceExt 22.7 s ✓ LinearSolve 9.2 s ✓ SciMLJacobianOperators 10.3 s ✓ LinearSolve → LinearSolveSparseArraysExt 9.6 s ✓ LinearSolve → LinearSolveForwardDiffExt 14.4 s ✓ LineSearch 21.0 s ✓ NonlinearSolveBase 6.1 s ✓ LinearSolve → LinearSolveEnzymeExt 5.2 s ✓ NonlinearSolveBase → NonlinearSolveBaseSparseMatrixColoringsExt 5.1 s ✓ NonlinearSolveBase → NonlinearSolveBaseSparseArraysExt 5.6 s ✓ NonlinearSolveBase → NonlinearSolveBaseLinearSolveExt 4.0 s ✓ NonlinearSolveBase → NonlinearSolveBaseLineSearchExt 13.0 s ✓ NonlinearSolveBase → NonlinearSolveBaseForwardDiffExt 10.7 s ✓ BracketingNonlinearSolve 32.0 s ✓ NonlinearSolveQuasiNewton 19.7 s ✓ NonlinearSolveSpectralMethods 56.7 s ✓ NonlinearSolveFirstOrder 4.2 s ✓ BracketingNonlinearSolve → BracketingNonlinearSolveForwardDiffExt 10.5 s ✓ DiffEqBase 7.2 s ✓ NonlinearSolveQuasiNewton → NonlinearSolveQuasiNewtonForwardDiffExt 5.5 s ✓ NonlinearSolveSpectralMethods → NonlinearSolveSpectralMethodsForwardDiffExt 20.2 s ✓ SimpleNonlinearSolve 5.7 s ✓ DiffEqBase → DiffEqBaseSparseArraysExt 9.7 s ✓ DiffEqBase → DiffEqBaseForwardDiffExt 11.5 s ✓ OrdinaryDiffEqCore 101.5 s ✓ NonlinearSolve 5.4 s ✓ OrdinaryDiffEqCore → OrdinaryDiffEqCoreSparseArraysExt 57.2 s ✓ OrdinaryDiffEqVerner 14.2 s ✓ OrdinaryDiffEqTsit5 11.4 s ✓ OrdinaryDiffEqDifferentiation 6.7 s ✓ OrdinaryDiffEqDifferentiation → OrdinaryDiffEqDifferentiationSparseArraysExt 36.5 s ✓ OrdinaryDiffEqRosenbrock 16.6 s ✓ OrdinaryDiffEqNonlinearSolve 274.5 s ✓ OrdinaryDiffEqSDIRK 36.1 s ✓ OrdinaryDiffEqBDF 85.1 s ✓ OrdinaryDiffEqDefault 18.9 s ✓ OrdinaryDiffEq 19.1 s ✓ DifferentialEquations 43 dependencies successfully precompiled in 1067 seconds. 301 already precompiled. Precompilation completed after 1100.26s ################################################################################ # Testing # Testing CellularPotts Test Could not use exact versions of packages in manifest, re-resolving. Note: if you do not check your manifest file into source control, then you can probably ignore this message. However, if you do check your manifest file into source control, then you probably want to pass the `allow_reresolve = false` kwarg when calling the `Pkg.test` function. Updating `/tmp/jl_Jh1jGj/Project.toml` [6e4b80f9] + BenchmarkTools v1.8.0 [11b7dee7] + CellularPotts v0.3.6 [0c46a032] + DifferentialEquations v8.0.0 Updating `/tmp/jl_Jh1jGj/Manifest.toml` [47edcb42] + ADTypes v1.22.0 [7d9f7c33] + Accessors v0.1.44 [79e6a3ab] + Adapt v4.6.0 [4fba245c] + ArrayInterface v7.25.0 [6e4b80f9] + BenchmarkTools v1.8.0 [70df07ce] + BracketingNonlinearSolve v1.12.1 [11b7dee7] + CellularPotts v0.3.6 [38540f10] + CommonSolve v0.2.7 [bbf7d656] + CommonSubexpressions v0.3.1 [34da2185] + Compat v4.18.1 [a33af91c] + CompositionsBase v0.1.2 [2569d6c7] + ConcreteStructs v0.2.4 [187b0558] + ConstructionBase v1.6.0 [2b5f629d] + DiffEqBase v7.5.5 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.16.0 [0c46a032] + DifferentialEquations v8.0.0 [a0c0ee7d] + DifferentiationInterface v0.7.18 [4e289a0a] + EnumX v1.0.7 [f151be2c] + EnzymeCore v0.8.20 [e2ba6199] + ExprTools v0.1.10 [7034ab61] + FastBroadcast v1.3.2 [9aa1b823] + FastClosures v0.3.2 [a4df4552] + FastPower v1.3.1 [6a86dc24] + FiniteDiff v2.31.0 [f6369f11] + ForwardDiff v1.3.3 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v1.9.1 [46192b85] + GPUArraysCore v0.2.0 [3587e190] + InverseFunctions v0.1.17 ⌃ [682c06a0] ↓ JSON v1.6.0 ⇒ v0.21.4 [ba0b0d4f] + Krylov v0.10.6 [87fe0de2] + LineSearch v0.1.9 [7ed4a6bd] + LinearSolve v3.82.0 ⌅ [2ab3a3ac] ↓ LogExpFunctions v1.0.0 ⇒ v0.3.29 [bb5d69b7] + MaybeInplace v0.1.4 [46d2c3a1] + MuladdMacro v0.2.4 [8913a72c] + NonlinearSolve v4.19.1 [be0214bd] + NonlinearSolveBase v2.30.2 [5959db7a] + NonlinearSolveFirstOrder v2.1.1 [9a2c21bd] + NonlinearSolveQuasiNewton v1.13.1 [26075421] + NonlinearSolveSpectralMethods v1.7.1 [1dea7af3] + OrdinaryDiffEq v7.0.0 [6ad6398a] + OrdinaryDiffEqBDF v2.2.0 [bbf590c4] + OrdinaryDiffEqCore v4.3.0 [50262376] + OrdinaryDiffEqDefault v2.2.0 [4302a76b] + OrdinaryDiffEqDifferentiation v3.2.0 [127b3ac7] + OrdinaryDiffEqNonlinearSolve v2.0.0 [43230ef6] + OrdinaryDiffEqRosenbrock v2.3.0 [b4bd8bb3] + OrdinaryDiffEqRosenbrockTableaus v2.1.0 [2d112036] + OrdinaryDiffEqSDIRK v2.7.0 [b1df2697] + OrdinaryDiffEqTsit5 v2.0.1 [79d7bb75] + OrdinaryDiffEqVerner v2.1.0 [d236fae5] + PreallocationTools v1.2.0 [731186ca] + RecursiveArrayTools v4.3.0 [7e49a35a] + RuntimeGeneratedFunctions v0.5.19 [0bca4576] + SciMLBase v3.17.0 [19f34311] + SciMLJacobianOperators v0.1.13 [a6db7da4] + SciMLLogging v2.0.0 [c0aeaf25] + SciMLOperators v1.22.0 [431bcebd] + SciMLPublic v1.0.1 [53ae85a6] + SciMLStructures v1.10.0 [efcf1570] + Setfield v1.1.2 [727e6d20] + SimpleNonlinearSolve v2.12.0 [0a514795] + SparseMatrixColorings v0.4.27 [276daf66] + SpecialFunctions v2.8.0 [ec057cc2] - StructUtils v2.8.2 ⌃ [2efcf032] + SymbolicIndexingInterface v0.3.44 [a759f4b9] + TimerOutputs v0.5.29 [781d530d] + TruncatedStacktraces v1.4.0 [1d5cc7b8] + IntelOpenMP_jll v2025.2.0+0 [856f044c] + MKL_jll v2025.2.0+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [1317d2d5] + oneTBB_jll v2022.3.0+0 [8ba89e20] + Distributed v1.11.0 [9fa8497b] + Future v1.11.0 [4af54fe1] + LazyArtifacts v1.11.0 [9abbd945] + Profile v1.11.0 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` Test Successfully re-resolved Status `/tmp/jl_Jh1jGj/Project.toml` [6e4b80f9] BenchmarkTools v1.8.0 [11b7dee7] CellularPotts v0.3.6 [35d6a980] ColorSchemes v3.31.0 [5ae59095] Colors v0.13.1 [0c46a032] DifferentialEquations v8.0.0 [e30172f5] Documenter v1.17.0 [86223c79] Graphs v1.14.0 [98b081ad] Literate v2.21.0 [2679e427] Metis v1.5.0 [6fe1bfb0] OffsetArrays v1.17.0 [91a5bcdd] Plots v1.41.6 ⌅ [08abe8d2] PrettyTables v2.4.0 [10745b16] Statistics v1.11.1 [2913bbd2] StatsBase v0.34.11 [37e2e46d] LinearAlgebra v1.14.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [2f01184e] SparseArrays v1.13.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_Jh1jGj/Manifest.toml` [47edcb42] ADTypes v1.22.0 [a4c015fc] ANSIColoredPrinters v0.0.1 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.44 [79e6a3ab] Adapt v4.6.0 [66dad0bd] AliasTables v1.1.3 [ec485272] ArnoldiMethod v0.4.0 [4fba245c] ArrayInterface v7.25.0 [6e4b80f9] BenchmarkTools v1.8.0 [d1d4a3ce] BitFlags v0.1.10 [70df07ce] BracketingNonlinearSolve v1.12.1 [fa961155] CEnum v0.5.0 [11b7dee7] CellularPotts v0.3.6 [944b1d66] CodecZlib v0.7.8 [35d6a980] ColorSchemes v3.31.0 [3da002f7] ColorTypes v0.12.1 [c3611d14] ColorVectorSpace v0.11.0 [5ae59095] Colors v0.13.1 [38540f10] CommonSolve v0.2.7 [bbf7d656] CommonSubexpressions v0.3.1 [34da2185] Compat v4.18.1 [a33af91c] CompositionsBase v0.1.2 [2569d6c7] ConcreteStructs v0.2.4 [f0e56b4a] ConcurrentUtilities v2.5.1 [187b0558] ConstructionBase v1.6.0 [d38c429a] Contour v0.6.3 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [864edb3b] DataStructures v0.19.5 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [2b5f629d] DiffEqBase v7.5.5 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.16.0 [0c46a032] DifferentialEquations v8.0.0 [a0c0ee7d] DifferentiationInterface v0.7.18 [ffbed154] DocStringExtensions v0.9.5 [e30172f5] Documenter v1.17.0 [4e289a0a] EnumX v1.0.7 [f151be2c] EnzymeCore v0.8.20 [460bff9d] 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JuliaSyntaxHighlighting v1.13.0 [4af54fe1] LazyArtifacts v1.11.0 [b27032c2] LibCURL v1.0.0 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.14.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.14.0 [de0858da] Printf v1.11.0 [9abbd945] Profile v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v1.13.0 [9e88b42a] Serialization v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.13.0 [f489334b] StyledStrings v1.13.0 [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 v1.5.2+0 [deac9b47] LibCURL_jll v8.20.0+1 [e37daf67] LibGit2_jll v1.9.4+0 [29816b5a] LibSSH2_jll v1.11.101+0 [14a3606d] MozillaCACerts_jll v2026.5.14 [4536629a] OpenBLAS_jll v0.3.33+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.6+0 [efcefdf7] PCRE2_jll v10.47.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.2+0 [3161d3a3] Zstd_jll v1.5.7+1 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.69.0+0 [3f19e933] p7zip_jll v17.8.0+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 Spaces or graphs, who's to say? | 3 3 5.6s Test Summary: | Pass Total Time Periodic grids | 8 8 0.1s Test Summary: | Pass Total Time Neighborhoods | 2 2 0.0s Test Summary: | Pass Total Time Lonely cells | 2 2 7.3s Test Summary: | Pass Total Time Testing positions keyword | 2 2 1.8s Test Summary: | Pass Total Time Adding Cell Properties | 6 6 1.4s Test Summary: | Pass Total Time Add/Delete Cells | 2 2 0.4s Test Summary: | Pass Total Time Penalty tests | 1 1 1.2s Test Summary: | Pass Total Time General Fragment Test | 1 1 4.5s Test Summary: | Pass Total Time Euler Characteristic | 2 2 2.5s Test Summary: | Pass Total Time Show me the CPM | 1 1 0.5s Test Summary: | Pass Total Time Hello World | 1 1 4.2s Test Summary: | Pass Total Time Going 3D | 1 1 5.1s Test Summary: | Pass Total Time Lets Get Moving | 1 1 5.7s Test Summary: | Pass Total Time OnPatrol | 1 1 13.2s Test Summary: | Pass Total Time Over Here | 1 1 3.3s Bringing ODEs To Life: Error During Test at /home/pkgeval/.julia/packages/CellularPotts/EuGHg/test/runtests.jl:294 Got exception outside of a @test LoadError: UndefVarError: `PeriodicCallback` not defined in `Main` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ ~/.julia/packages/CellularPotts/EuGHg/docs/src/ExampleGallery/BringingODEsToLife/BringingODEsToLife.jl:49 [2] include(mapexpr::Function, mod::Module, _path::String) @ Base Base.jl:327 [3] top-level scope @ ~/.julia/packages/CellularPotts/EuGHg/test/runtests.jl:296 [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2246 [inlined] [5] macro expansion @ ~/.julia/packages/CellularPotts/EuGHg/test/runtests.jl:301 [inlined] [6] include(mapexpr::Function, mod::Module, _path::String) @ Base Base.jl:327 [7] top-level scope @ none:6 [8] eval(m::Module, e::Any) @ Core boot.jl:517 [9] exec_options(opts::Base.JLOptions) @ Base client.jl:321 [10] _start() @ Base client.jl:596 in expression starting at /home/pkgeval/.julia/packages/CellularPotts/EuGHg/docs/src/ExampleGallery/BringingODEsToLife/BringingODEsToLife.jl:49 Test Summary: | Error Total Time Bringing ODEs To Life | 1 1 37.7s RNG of the outermost testset: Xoshiro(0xcc947803729c82b4, 0x1dbc63f5c55afe11, 0x95cc970b7e2e8504, 0xec736d8d975d57cc, 0x89f095fd5d237c8f) ERROR: LoadError: Some tests did not pass: 0 passed, 0 failed, 1 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/CellularPotts/EuGHg/test/runtests.jl:294 Testing failed after 156.38s ERROR: LoadError: Package CellularPotts 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:3247 [3] 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:587 [4] 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 [5] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [6] test(pkg::String; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:159 [inlined] [7] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:223 [8] include(mod::Module, _path::String) @ Base Base.jl:326 [9] exec_options(opts::Base.JLOptions) @ Base client.jl:355 [10] _start() @ Base client.jl:596 in expression starting at /PkgEval.jl/scripts/evaluate.jl:214 PkgEval failed after 1302.83s: package tests unexpectedly errored