Package evaluation of PALEOmodel on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T22:00:49.713 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.18s ################################################################################ # Installation # Installing PALEOmodel... Resolving package versions... Updating `~/.julia/environments/v1.11/Project.toml` [bf7b4fbe] + PALEOmodel v0.16.5 Updating `~/.julia/environments/v1.11/Manifest.toml` [47edcb42] + ADTypes v1.14.0 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [ec485272] + ArnoldiMethod v0.4.0 [4fba245c] + ArrayInterface v7.18.0 [a9b6321e] + Atomix v1.1.1 [13072b0f] + AxisAlgorithms v1.1.0 [6e4b80f9] + BenchmarkTools v1.6.0 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [e1450e63] + BufferedStreams v1.2.2 [fa961155] + CEnum v0.5.0 ⌅ [179af706] + CFTime v0.1.4 [2a0fbf3d] + CPUSummary v0.2.6 [d360d2e6] + ChainRulesCore v1.25.1 [fb6a15b2] + CloseOpenIntervals v0.1.13 [da1fd8a2] + CodeTracking v1.3.9 [944b1d66] + CodecZlib v0.7.8 [1fbeeb36] + CommonDataModel v0.3.8 [38540f10] + CommonSolve v0.2.4 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.16.0 [a33af91c] + CompositionsBase v0.1.2 [2569d6c7] + ConcreteStructs v0.2.3 [187b0558] + ConstructionBase v1.5.8 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [2b5f629d] + DiffEqBase v6.167.2 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [a0c0ee7d] + DifferentiationInterface v0.6.50 [3c3547ce] + DiskArrays v0.4.12 [b4f34e82] + Distances v0.10.12 [ffbed154] + DocStringExtensions v0.9.4 [4e289a0a] + EnumX v1.0.5 [f151be2c] + EnzymeCore v0.8.8 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [7034ab61] + FastBroadcast v0.3.5 [9aa1b823] + FastClosures v0.3.2 [a4df4552] + FastPower v1.1.2 [5789e2e9] + FileIO v1.17.0 [6a86dc24] + FiniteDiff v2.27.0 ⌅ [f6369f11] + ForwardDiff v0.10.38 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v0.1.3 [46192b85] + GPUArraysCore v0.2.0 [86223c79] + Graphs v1.12.1 [f67ccb44] + HDF5 v0.17.2 [615f187c] + IfElse v0.1.1 [5903a43b] + Infiltrator v1.8.7 [d25df0c9] + Inflate v0.1.5 [842dd82b] + InlineStrings v1.4.3 [a98d9a8b] + Interpolations v0.15.1 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 [682c06a0] + JSON v0.21.4 [ae98c720] + Jieko v0.2.1 [aa1ae85d] + JuliaInterpreter v0.9.42 [8ac3fa9e] + LRUCache v1.6.2 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 [d3d80556] + LineSearches v7.3.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [6f1432cf] + LoweredCodeUtils v3.1.0 [23992714] + MAT v0.10.7 [3da0fdf6] + MPIPreferences v0.1.11 [1914dd2f] + MacroTools v0.5.15 [d125e4d3] + ManualMemory v0.1.8 [e1d29d7a] + Missings v1.2.0 [2e0e35c7] + Moshi v0.3.5 [46d2c3a1] + MuladdMacro v0.2.4 [bdf0d083] + MultiFloats v2.3.0 [85f8d34a] + NCDatasets v0.14.7 [d41bc354] + NLSolversBase v7.9.1 [2774e3e8] + NLsolve v4.5.1 [77ba4419] + NaNMath v1.1.3 [6fe1bfb0] + OffsetArrays v1.16.0 [bac558e1] + OrderedCollections v1.8.0 [804b410e] + PALEOboxes v0.22.4 [bf7b4fbe] + PALEOmodel v0.16.5 [65ce6f38] + PackageExtensionCompat v1.0.2 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.1 [f517fe37] + Polyester v0.7.16 [1d0040c9] + PolyesterWeave v0.2.2 [2dfb63ee] + PooledArrays v1.4.3 ⌅ [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [08abe8d2] + PrettyTables v2.4.0 [c84ed2f1] + Ratios v0.4.5 [3cdcf5f2] + RecipesBase v1.3.4 [731186ca] + RecursiveArrayTools v3.31.2 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [295af30f] + Revise v3.7.3 [7e49a35a] + RuntimeGeneratedFunctions v0.5.13 [fdea26ae] + SIMD v3.7.1 [94e857df] + SIMDTypes v0.1.0 [0bca4576] + SciMLBase v2.82.1 [c0aeaf25] + SciMLOperators v0.3.13 [53ae85a6] + SciMLStructures v1.7.0 [91c51154] + SentinelArrays v1.4.8 [efcf1570] + Setfield v1.1.2 [699a6c99] + SimpleTraits v0.9.4 [a2af1166] + SortingAlgorithms v1.2.1 [47a9eef4] + SparseDiffTools v2.24.0 [06eadbd4] + SparsityTracing v0.2.6 [e56a9233] + Sparspak v0.3.9 [276daf66] + SpecialFunctions v2.5.0 [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 [7792a7ef] + StrideArraysCore v0.5.7 [69024149] + StringEncodings v0.3.7 [892a3eda] + StringManipulation v0.4.1 [09ab397b] + StructArrays v0.7.1 [c3572dad] + Sundials v4.27.0 [2efcf032] + SymbolicIndexingInterface v0.3.38 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.0 [1e6cf692] + TestEnv v1.102.0 [8290d209] + ThreadingUtilities v0.5.2 [a759f4b9] + TimerOutputs v0.5.28 [3bb67fe8] + TranscodingStreams v0.11.3 [781d530d] + TruncatedStacktraces v1.4.0 [3a884ed6] + UnPack v1.0.2 [013be700] + UnsafeAtomics v0.3.0 [19fa3120] + VertexSafeGraphs v0.2.0 [efce3f68] + WoodburyMatrices v1.0.0 ⌅ [ddb6d928] + YAML v0.4.12 [0b7ba130] + Blosc_jll v1.21.7+0 [6e34b625] + Bzip2_jll v1.0.9+0 [0234f1f7] + HDF5_jll v1.14.6+0 [e33a78d0] + Hwloc_jll v2.12.0+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [5ced341a] + Lz4_jll v1.10.1+0 [7cb0a576] + MPICH_jll v4.3.0+1 [f1f71cc9] + MPItrampoline_jll v5.5.3+0 [9237b28f] + MicrosoftMPI_jll v10.1.4+3 [7243133f] + NetCDF_jll v401.900.300+0 [fe0851c0] + OpenMPI_jll v5.0.7+2 [458c3c95] + OpenSSL_jll v3.0.16+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [63e82ce6] + SLEEF_jll v3.7.0+0 ⌅ [fb77eaff] + Sundials_jll v5.2.3+0 [02c8fc9c] + XML2_jll v2.13.6+1 [ffd25f8a] + XZ_jll v5.8.1+0 [3161d3a3] + Zstd_jll v1.5.7+1 [477f73a3] + libaec_jll v1.1.3+0 [337d8026] + libzip_jll v1.11.3+0 [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 v1.6.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.11.0 [de0858da] + Printf v1.11.0 [9abbd945] + Profile v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.11.0 [f489334b] + StyledStrings v1.11.0 [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 v1.1.1+0 [781609d7] + GMP_jll v6.3.0+0 [deac9b47] + LibCURL_jll v8.6.0+0 [e37daf67] + LibGit2_jll v1.7.2+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [3a97d323] + MPFR_jll v4.2.1+0 [c8ffd9c3] + MbedTLS_jll v2.28.6+0 [14a3606d] + MozillaCACerts_jll v2023.12.12 [4536629a] + OpenBLAS_jll v0.3.27+1 [05823500] + OpenLibm_jll v0.8.5+0 [bea87d4a] + SuiteSparse_jll v7.7.0+0 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 [8e850ede] + nghttp2_jll v1.59.0+0 [3f19e933] + p7zip_jll v17.4.0+2 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 11.09s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 119.17s ################################################################################ # Testing # Testing PALEOmodel Status `/tmp/jl_Usc03s/Project.toml` [a93c6f00] DataFrames v1.7.0 [b552c78f] DiffRules v1.15.1 [ffbed154] DocStringExtensions v0.9.4 [5789e2e9] FileIO v1.17.0 ⌅ [f6369f11] ForwardDiff v0.10.38 [5903a43b] Infiltrator v1.8.7 [bdf0d083] MultiFloats v2.3.0 [85f8d34a] NCDatasets v0.14.7 [2774e3e8] NLsolve v4.5.1 [bac558e1] OrderedCollections v1.8.0 [804b410e] PALEOboxes v0.22.4 [bf7b4fbe] PALEOmodel v0.16.5 [3cdcf5f2] RecipesBase v1.3.4 [ae029012] Requires v1.3.1 [295af30f] Revise v3.7.3 [0bca4576] SciMLBase v2.82.1 [47a9eef4] SparseDiffTools v2.24.0 [06eadbd4] SparsityTracing v0.2.6 [e56a9233] Sparspak v0.3.9 [276daf66] SpecialFunctions v2.5.0 [90137ffa] StaticArrays v1.9.13 [c3572dad] Sundials v4.27.0 [1e6cf692] TestEnv v1.102.0 [a759f4b9] TimerOutputs v0.5.28 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [de0858da] Printf v1.11.0 [2f01184e] SparseArrays v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_Usc03s/Manifest.toml` [47edcb42] ADTypes v1.14.0 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [ec485272] ArnoldiMethod v0.4.0 [4fba245c] ArrayInterface v7.18.0 [a9b6321e] Atomix v1.1.1 [13072b0f] AxisAlgorithms v1.1.0 [6e4b80f9] BenchmarkTools v1.6.0 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [e1450e63] BufferedStreams v1.2.2 [fa961155] CEnum v0.5.0 ⌅ [179af706] CFTime v0.1.4 [2a0fbf3d] CPUSummary v0.2.6 [d360d2e6] ChainRulesCore v1.25.1 [fb6a15b2] CloseOpenIntervals v0.1.13 [da1fd8a2] CodeTracking v1.3.9 [944b1d66] CodecZlib v0.7.8 [1fbeeb36] CommonDataModel v0.3.8 [38540f10] CommonSolve v0.2.4 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.16.0 [a33af91c] CompositionsBase v0.1.2 [2569d6c7] ConcreteStructs v0.2.3 [187b0558] ConstructionBase v1.5.8 [adafc99b] CpuId v0.3.1 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.0 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [2b5f629d] DiffEqBase v6.167.2 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [a0c0ee7d] DifferentiationInterface v0.6.50 [3c3547ce] DiskArrays v0.4.12 [b4f34e82] Distances v0.10.12 [ffbed154] DocStringExtensions v0.9.4 [4e289a0a] EnumX v1.0.5 [f151be2c] EnzymeCore v0.8.8 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [7034ab61] FastBroadcast v0.3.5 [9aa1b823] FastClosures v0.3.2 [a4df4552] FastPower v1.1.2 [5789e2e9] FileIO v1.17.0 [6a86dc24] FiniteDiff v2.27.0 ⌅ [f6369f11] ForwardDiff v0.10.38 [069b7b12] FunctionWrappers v1.1.3 [77dc65aa] FunctionWrappersWrappers v0.1.3 [46192b85] GPUArraysCore v0.2.0 [86223c79] Graphs v1.12.1 [f67ccb44] HDF5 v0.17.2 [615f187c] IfElse v0.1.1 [5903a43b] Infiltrator v1.8.7 [d25df0c9] Inflate v0.1.5 [842dd82b] InlineStrings v1.4.3 [a98d9a8b] Interpolations v0.15.1 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [682c06a0] JSON v0.21.4 [ae98c720] Jieko v0.2.1 [aa1ae85d] JuliaInterpreter v0.9.42 [8ac3fa9e] LRUCache v1.6.2 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 [d3d80556] LineSearches v7.3.0 [2ab3a3ac] LogExpFunctions v0.3.29 [6f1432cf] LoweredCodeUtils v3.1.0 [23992714] MAT v0.10.7 [3da0fdf6] MPIPreferences v0.1.11 [1914dd2f] MacroTools v0.5.15 [d125e4d3] ManualMemory v0.1.8 [e1d29d7a] Missings v1.2.0 [2e0e35c7] Moshi v0.3.5 [46d2c3a1] MuladdMacro v0.2.4 [bdf0d083] MultiFloats v2.3.0 [85f8d34a] NCDatasets v0.14.7 [d41bc354] NLSolversBase v7.9.1 [2774e3e8] NLsolve v4.5.1 [77ba4419] NaNMath v1.1.3 [6fe1bfb0] OffsetArrays v1.16.0 [bac558e1] OrderedCollections v1.8.0 [804b410e] PALEOboxes v0.22.4 [bf7b4fbe] PALEOmodel v0.16.5 [65ce6f38] PackageExtensionCompat v1.0.2 [d96e819e] Parameters v0.12.3 [69de0a69] Parsers v2.8.1 [f517fe37] Polyester v0.7.16 [1d0040c9] PolyesterWeave v0.2.2 [2dfb63ee] PooledArrays v1.4.3 ⌅ [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.4.3 [08abe8d2] PrettyTables v2.4.0 [c84ed2f1] Ratios v0.4.5 [3cdcf5f2] RecipesBase v1.3.4 [731186ca] RecursiveArrayTools v3.31.2 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [295af30f] Revise v3.7.3 [7e49a35a] RuntimeGeneratedFunctions v0.5.13 [fdea26ae] SIMD v3.7.1 [94e857df] SIMDTypes v0.1.0 [0bca4576] SciMLBase v2.82.1 [c0aeaf25] SciMLOperators v0.3.13 [53ae85a6] SciMLStructures v1.7.0 [91c51154] SentinelArrays v1.4.8 [efcf1570] Setfield v1.1.2 [699a6c99] SimpleTraits v0.9.4 [a2af1166] SortingAlgorithms v1.2.1 [47a9eef4] SparseDiffTools v2.24.0 [06eadbd4] SparsityTracing v0.2.6 [e56a9233] Sparspak v0.3.9 [276daf66] SpecialFunctions v2.5.0 [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 [7792a7ef] StrideArraysCore v0.5.7 [69024149] StringEncodings v0.3.7 [892a3eda] StringManipulation v0.4.1 [09ab397b] StructArrays v0.7.1 [c3572dad] Sundials v4.27.0 [2efcf032] SymbolicIndexingInterface v0.3.38 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.0 [1e6cf692] TestEnv v1.102.0 [8290d209] ThreadingUtilities v0.5.2 [a759f4b9] TimerOutputs v0.5.28 [3bb67fe8] TranscodingStreams v0.11.3 [781d530d] TruncatedStacktraces v1.4.0 [3a884ed6] UnPack v1.0.2 [013be700] UnsafeAtomics v0.3.0 [19fa3120] VertexSafeGraphs v0.2.0 [efce3f68] WoodburyMatrices v1.0.0 ⌅ [ddb6d928] YAML v0.4.12 [0b7ba130] Blosc_jll v1.21.7+0 [6e34b625] Bzip2_jll v1.0.9+0 [0234f1f7] HDF5_jll v1.14.6+0 [e33a78d0] Hwloc_jll v2.12.0+0 [94ce4f54] Libiconv_jll v1.18.0+0 [5ced341a] Lz4_jll v1.10.1+0 [7cb0a576] MPICH_jll v4.3.0+1 [f1f71cc9] MPItrampoline_jll v5.5.3+0 [9237b28f] MicrosoftMPI_jll v10.1.4+3 [7243133f] NetCDF_jll v401.900.300+0 [fe0851c0] OpenMPI_jll v5.0.7+2 [458c3c95] OpenSSL_jll v3.0.16+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [63e82ce6] SLEEF_jll v3.7.0+0 ⌅ [fb77eaff] Sundials_jll v5.2.3+0 [02c8fc9c] XML2_jll v2.13.6+1 [ffd25f8a] XZ_jll v5.8.1+0 [3161d3a3] Zstd_jll v1.5.7+1 [477f73a3] libaec_jll v1.1.3+0 [337d8026] libzip_jll v1.11.3+0 [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 v1.6.0 [7b1f6079] FileWatching v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [4af54fe1] LazyArtifacts v1.11.0 [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.11.0 [de0858da] Printf v1.11.0 [9abbd945] Profile v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [1a1011a3] SharedArrays v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.11.0 [f489334b] StyledStrings v1.11.0 [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 v1.1.1+0 [781609d7] GMP_jll v6.3.0+0 [deac9b47] LibCURL_jll v8.6.0+0 [e37daf67] LibGit2_jll v1.7.2+0 [29816b5a] LibSSH2_jll v1.11.0+1 [3a97d323] MPFR_jll v4.2.1+0 [c8ffd9c3] MbedTLS_jll v2.28.6+0 [14a3606d] MozillaCACerts_jll v2023.12.12 [4536629a] OpenBLAS_jll v0.3.27+1 [05823500] OpenLibm_jll v0.8.5+0 [bea87d4a] SuiteSparse_jll v7.7.0+0 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.59.0+0 [3f19e933] p7zip_jll v17.4.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Precompiling PALEOboxes... Info Given PALEOboxes was explicitly requested, output will be shown live  [ Info: PALEOboxes.SIMDutils defining USE_SLEEF = false in LocalPreferences.toml 92398.3 ms ✓ PALEOboxes 1 dependency successfully precompiled in 96 seconds. 143 already precompiled. 1 dependency had output during precompilation: ┌ PALEOboxes │ [Output was shown above] └ Precompiling PALEOmodel... 1241.5 ms ✓ SciMLOperators → SciMLOperatorsStaticArraysCoreExt 9496.4 ms ✓ RecursiveArrayTools 18396.4 ms ✓ SparseDiffTools 20615.3 ms ✓ RecursiveArrayTools → RecursiveArrayToolsFastBroadcastExt 1601.1 ms ✓ RecursiveArrayTools → RecursiveArrayToolsStructArraysExt 1865.4 ms ✓ RecursiveArrayTools → RecursiveArrayToolsSparseArraysExt 2075.2 ms ✓ RecursiveArrayTools → RecursiveArrayToolsForwardDiffExt 24669.1 ms ✓ SciMLBase 4904.4 ms ✓ SparseDiffTools → SparseDiffToolsPolyesterExt 2643.2 ms ✓ SciMLBase → SciMLBaseChainRulesCoreExt 7407.5 ms ✓ DiffEqBase 3822.1 ms ✓ DiffEqBase → DiffEqBaseChainRulesCoreExt 4605.8 ms ✓ DiffEqBase → DiffEqBaseForwardDiffExt 3715.8 ms ✓ DiffEqBase → DiffEqBaseSparseArraysExt 26129.2 ms ✓ Sundials 55654.6 ms ✓ PALEOmodel 16 dependencies successfully precompiled in 195 seconds. 245 already precompiled. [ Info: ScalarData, ScalarSpace ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = macro expansion at runfieldtests.jl:76 [inlined] └ @ Core ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:76 ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = macro expansion at runfieldtests.jl:83 [inlined] └ @ Core ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:83 ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = macro expansion at runfieldtests.jl:95 [inlined] └ @ Core ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:95 [ Info: ScalarData, CellSpace, no grid ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = (::var"#test_ScalarData_1cell#1")(f::PALEOboxes.Field{PALEOboxes.ScalarData, PALEOboxes.CellSpace, Vector{Float64}, 0, Nothing}) at runfieldtests.jl:121 └ @ Main ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:121 ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = (::var"#test_ScalarData_1cell#1")(f::PALEOboxes.Field{PALEOboxes.ScalarData, PALEOboxes.CellSpace, Vector{Float64}, 0, Nothing}) at runfieldtests.jl:130 └ @ Main ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:130 ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = (::var"#test_ScalarData_1cell#1")(f::PALEOboxes.Field{PALEOboxes.ScalarData, PALEOboxes.CellSpace, Vector{Float64}, 0, Nothing}) at runfieldtests.jl:141 └ @ Main ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:141 ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = (::var"#test_ScalarData_1cell#1")(f::PALEOboxes.Field{PALEOboxes.ScalarData, PALEOboxes.CellSpace, Vector{Float64}, 0, Nothing}) at runfieldtests.jl:150 └ @ Main ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:150 [ Info: ScalarData, CellSpace, grid with 1 cell ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = (::var"#test_ScalarData_1cell#1")(f::PALEOboxes.Field{PALEOboxes.ScalarData, PALEOboxes.CellSpace, Vector{Float64}, 0, PALEOboxes.Grids.UnstructuredVectorGrid}) at runfieldtests.jl:121 └ @ Main ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:121 ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = (::var"#test_ScalarData_1cell#1")(f::PALEOboxes.Field{PALEOboxes.ScalarData, PALEOboxes.CellSpace, Vector{Float64}, 0, PALEOboxes.Grids.UnstructuredVectorGrid}) at runfieldtests.jl:130 └ @ Main ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:130 ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = (::var"#test_ScalarData_1cell#1")(f::PALEOboxes.Field{PALEOboxes.ScalarData, PALEOboxes.CellSpace, Vector{Float64}, 0, PALEOboxes.Grids.UnstructuredVectorGrid}) at runfieldtests.jl:141 └ @ Main ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:141 ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = (::var"#test_ScalarData_1cell#1")(f::PALEOboxes.Field{PALEOboxes.ScalarData, PALEOboxes.CellSpace, Vector{Float64}, 0, PALEOboxes.Grids.UnstructuredVectorGrid}) at runfieldtests.jl:150 └ @ Main ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:150 [ Info: ScalarData, CellSpace, UnstructuredColumnGrid ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = macro expansion at runfieldtests.jl:218 [inlined] └ @ Core ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:218 [ Info: ArrayScalarData, ScalarSpace ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = macro expansion at runfieldtests.jl:246 [inlined] └ @ Core ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:246 [ Info: ArrayScalarData, CellSpace, no grid [ Info: ArrayScalarData, CellSpace, grid with 1 cell [ Info: ArrayScalarData, CellSpace, UnstructuredColumnGrid ┌ Warning: allselectargs... will be deprecated in a future release. Please use allselectargs::NamedTuple instead │ caller = macro expansion at runfieldtests.jl:382 [inlined] └ @ Core ~/.julia/packages/PALEOmodel/uXiph/test/runfieldtests.jl:382 [ Info: copy FieldRecord before loop Threads.threadid() 1 Start Threads.threadid() 1 after loop Threads.threadid() 1 before loop Threads.threadid() 1 Start Threads.threadid() 1 after loop Threads.threadid() 1 [ Info: FGMRES: kinstats = (ReturnFlag = 0, NumFuncEvals = 6, NumNonlinSolvIters = 5, NumBetaCondFails = 0, NumBacktrackOps = 0, FuncNorm = 1.3317350971237098e-22, StepLength = 6.53197187984327e-8, NumJacEvals = 0, NumLinFuncEvals = 10, NumLinIters = 5, NumLinConvFails = 0, NumPrecEvals = 0, NumPrecSolves = 0, NumJtimesEvals = 10) [ Info: FGMRES identity prec: kinstats = (ReturnFlag = 0, NumFuncEvals = 6, NumNonlinSolvIters = 5, NumBetaCondFails = 0, NumBacktrackOps = 0, FuncNorm = 1.3317350971237098e-22, StepLength = 6.53197187984327e-8, NumJacEvals = 0, NumLinFuncEvals = 10, NumLinIters = 5, NumLinConvFails = 0, NumPrecEvals = 1, NumPrecSolves = 5, NumJtimesEvals = 10) [ Info: FGMRES identity prec jv: kinstats = (ReturnFlag = 0, NumFuncEvals = 6, NumNonlinSolvIters = 5, NumBetaCondFails = 0, NumBacktrackOps = 0, FuncNorm = 8.833842810920609e-21, StepLength = 6.530005548713037e-8, NumJacEvals = 0, NumLinFuncEvals = 0, NumLinIters = 5, NumLinConvFails = 0, NumPrecEvals = 0, NumPrecSolves = 5, NumJtimesEvals = 10) ┌ Info: │ ================================================================================ │ create_model_from_config: configmodel model1 │ config_file: /home/pkgeval/.julia/packages/PALEOmodel/uXiph/test/configreservoirs.yaml └ ================================================================================ ┌ Info: Model.parameters: └ CIsotope = IsotopeLinear ┌ Info: │ ================================================================================ │ creating Domains └ ================================================================================ [ Info: generated Reaction catalog with 22 Reactions ┌ Info: │ ================================================================================ │ creating domain 'global' ID=1 └ ================================================================================ ┌ Info: create_reaction_from_config: global.reservoir_A classname ReactionReservoirScalar │ set parameters: [config.yaml] field_data =external%CIsotope │ expandvalue: external%CIsotope -> IsotopeLinear │ after substitution field_data=IsotopeLinear │ set parameters: [Default] const =false └ set parameters: [Default] state_norm =false ┌ Info: create_reaction_from_config: global.reservoir_O classname ReactionReservoirScalar │ set parameters: [Default] field_data =PALEOboxes.ScalarData │ set parameters: [Default] const =false └ set parameters: [Default] state_norm =false ┌ Info: │ ================================================================================ │ creating domain 'ocean' ID=2 └ ================================================================================ ┌ Info: create_reaction_from_config: ocean.reservoir_tracer classname ReactionReservoirTotal │ set parameters: [Default] field_data =PALEOboxes.ScalarData │ set parameters: [Default] total =true │ set parameters: [Default] limit_delta_conc =0.0 └ set parameters: [Default] state_conc =false ┌ Info: create_reaction_from_config: ocean.const_volume classname ReactionConst └ set parameters: [config.yaml] constnames =["volume"] ┌ Info: create_reaction_from_config: ocean.grid classname ReactionUnstructuredVectorGrid └ set parameters: [config.yaml] ncells =10 ┌ Info: │ ================================================================================ │ set_model_geometry └ ================================================================================ [ Info: set_model_geometry ocean.grid [ Info: set ocean Domain size=10 grid=UnstructuredVectorGrid(ncells=10, cellnames=Dict{Symbol, Int64}(), subdomains: String[]) ┌ Info: │ ================================================================================ │ register_reaction_methods! └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables: first pass └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables: register_reaction_dynamic_methods and configure variables └ ================================================================================ ┌ Info: _configure_variables: ReactionReservoirScalar global.reservoir_A variable_links: │ set variable_links: R -> A │ set variable_links: R_sms -> A_sms │ set variable_links: R_norm -> A_norm │ set variable_links: R_delta -> A_delta │ _configure_variables: ReactionReservoirScalar global.reservoir_A variable_attributes: │ set attribute: R :norm_value = 3.193e17 │ set attribute: R :initial_value = 3.193e18 └ set attribute: R :initial_delta = 2.0 ┌ Info: _configure_variables: ReactionReservoirScalar global.reservoir_O variable_links: │ set variable_links: R -> O │ set variable_links: R_sms -> O_sms │ set variable_links: R_norm -> O_norm │ _configure_variables: ReactionReservoirScalar global.reservoir_O variable_attributes: │ set attribute: R :norm_value = 3.7e18 └ set attribute: R :initial_value = 3.7e19 ┌ Info: _configure_variables: ReactionReservoir ocean.reservoir_tracer variable_links: │ set variable_links: R -> T │ set variable_links: R_sms -> T_sms │ set variable_links: R_total -> T_total │ set variable_links: R_conc -> T_conc │ _configure_variables: ReactionReservoir ocean.reservoir_tracer variable_attributes: │ set attribute: R :norm_value = 10.0 └ set attribute: R :initial_value = 1.0 ┌ Info: _configure_variables: ReactionConst ocean.const_volume variable_attributes: └ set attribute: volume :initial_value = 10.0 ┌ Info: │ ================================================================================ │ link_variables: second pass: └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables! unlinked variables: └ ================================================================================ ┌ Info: │ ================================================================================ │ create_model_from_config: done └ ================================================================================ ┌ Info: │ ================================================================================ │ PALEOmodel.initialize! start └ ================================================================================ ┌ Info: │ ================================================================================ │ allocate_variables! (modeldata arrays_idx=1) └ ================================================================================ [ Info: Domain global data dimensions PALEOboxes.NamedDimension[] allocating 7 variables (hostdep=nothing) [ Info: Domain ocean data dimensions PALEOboxes.NamedDimension[] allocating 5 variables (hostdep=nothing) [ Info: set_default_solver_view: ┌ Info: SolverView: │ host-dependent Variables: │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ Domain operatorID VF_StateExplicit VF_Total VF_Constraint VF_StateTotal VF_State VF_Undefined │ global 0 2 0 0 0 0 0 │ ocean 0 1 0 0 0 0 0 │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ Total - 3 0 0 0 0 0 │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ n_state_vars 3 (stateexplicit 3 + statetotal 0 + state 0) │ n_equations 3 (stateexplicit 3 + total 0 + constraint 0) │ including all host-dependent non-state Variables └ host-dependent non-state Variables (:vfunction PB.VF_Undefined): Any[] ┌ Info: │ ================================================================================ │ initialize_reactiondata! (modeldata arrays_indices=1:1) └ ================================================================================ ┌ Info: │ ================================================================================ │ dispatch_setup :setup └ ================================================================================ [ Info: ocean.const_volume.setup_initialvalue_vars_default: [ Info: init_values! :initial_value ocean.volume = 10.0 ┌ Info: │ ================================================================================ │ dispatch_setup :norm_value └ ================================================================================ [ Info: init_values! :norm_value global.A = 3.193e17, delta=1.0 (fixed delta value to calculate norm) [ Info: init_values! :norm_value global.O = 3.7e18 [ Info: ocean.reservoir_tracer.setup_initialvalue_vars_default: [ Info: init_values! :norm_value ocean.T = 10.0 * volume ┌ Info: │ ================================================================================ │ dispatch_setup :initial_value └ ================================================================================ [ Info: init_values! :initial_value global.A = 3.193e18, delta=2.0 [ Info: init_values! :initial_value global.O = 3.7e19 [ Info: ocean.reservoir_tracer.setup_initialvalue_vars_default: [ Info: init_values! :initial_value ocean.T = 1.0 * volume ┌ Info: │ ================================================================================ │ PALEOmodel.initialize! done └ ================================================================================ VariableAggregatorNamed(modeldata=ModelData(model=Model(config_files='["/home/pkgeval/.julia/packages/PALEOmodel/uXiph/test/configreservoirs.yaml"]', name='model1'), domain_data=Tuple{DataType, String}[(Float64, "base")]), arrays_idx=1, global.*[:A, :A_delta, :A_norm, :A_sms, :O, :O_norm, :O_sms], ocean.*[:T, :T_conc, :T_sms, :T_total, :volume], ) ┌ Info: │ ================================================================================ │ create_model_from_config: configmodel model1 │ config_file: /home/pkgeval/.julia/packages/PALEOmodel/uXiph/test/configreservoirs.yaml └ ================================================================================ ┌ Info: Model.parameters: └ CIsotope = IsotopeLinear ┌ Info: │ ================================================================================ │ creating Domains └ ================================================================================ [ Info: generated Reaction catalog with 22 Reactions ┌ Info: │ ================================================================================ │ creating domain 'global' ID=1 └ ================================================================================ ┌ Info: create_reaction_from_config: global.reservoir_A classname ReactionReservoirScalar │ set parameters: [config.yaml] field_data =external%CIsotope │ expandvalue: external%CIsotope -> IsotopeLinear │ after substitution field_data=IsotopeLinear │ set parameters: [Default] const =false └ set parameters: [Default] state_norm =false ┌ Info: create_reaction_from_config: global.reservoir_O classname ReactionReservoirScalar │ set parameters: [Default] field_data =PALEOboxes.ScalarData │ set parameters: [Default] const =false └ set parameters: [Default] state_norm =false ┌ Info: │ ================================================================================ │ creating domain 'ocean' ID=2 └ ================================================================================ ┌ Info: create_reaction_from_config: ocean.reservoir_tracer classname ReactionReservoirTotal │ set parameters: [Default] field_data =PALEOboxes.ScalarData │ set parameters: [Default] total =true │ set parameters: [Default] limit_delta_conc =0.0 └ set parameters: [Default] state_conc =false ┌ Info: create_reaction_from_config: ocean.const_volume classname ReactionConst └ set parameters: [config.yaml] constnames =["volume"] ┌ Info: create_reaction_from_config: ocean.grid classname ReactionUnstructuredVectorGrid └ set parameters: [config.yaml] ncells =10 ┌ Info: │ ================================================================================ │ set_model_geometry └ ================================================================================ [ Info: set_model_geometry ocean.grid [ Info: set ocean Domain size=10 grid=UnstructuredVectorGrid(ncells=10, cellnames=Dict{Symbol, Int64}(), subdomains: String[]) ┌ Info: │ ================================================================================ │ register_reaction_methods! └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables: first pass └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables: register_reaction_dynamic_methods and configure variables └ ================================================================================ ┌ Info: _configure_variables: ReactionReservoirScalar global.reservoir_A variable_links: │ set variable_links: R -> A │ set variable_links: R_sms -> A_sms │ set variable_links: R_norm -> A_norm │ set variable_links: R_delta -> A_delta │ _configure_variables: ReactionReservoirScalar global.reservoir_A variable_attributes: │ set attribute: R :norm_value = 3.193e17 │ set attribute: R :initial_value = 3.193e18 └ set attribute: R :initial_delta = 2.0 ┌ Info: _configure_variables: ReactionReservoirScalar global.reservoir_O variable_links: │ set variable_links: R -> O │ set variable_links: R_sms -> O_sms │ set variable_links: R_norm -> O_norm │ _configure_variables: ReactionReservoirScalar global.reservoir_O variable_attributes: │ set attribute: R :norm_value = 3.7e18 └ set attribute: R :initial_value = 3.7e19 ┌ Info: _configure_variables: ReactionReservoir ocean.reservoir_tracer variable_links: │ set variable_links: R -> T │ set variable_links: R_sms -> T_sms │ set variable_links: R_total -> T_total │ set variable_links: R_conc -> T_conc │ _configure_variables: ReactionReservoir ocean.reservoir_tracer variable_attributes: │ set attribute: R :norm_value = 10.0 └ set attribute: R :initial_value = 1.0 ┌ Info: _configure_variables: ReactionConst ocean.const_volume variable_attributes: └ set attribute: volume :initial_value = 10.0 ┌ Info: │ ================================================================================ │ link_variables: second pass: └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables! unlinked variables: └ ================================================================================ ┌ Info: │ ================================================================================ │ create_model_from_config: done └ ================================================================================ ┌ Info: │ ================================================================================ │ PALEOmodel.initialize! start └ ================================================================================ ┌ Info: │ ================================================================================ │ allocate_variables! (modeldata arrays_idx=1) └ ================================================================================ [ Info: Domain global data dimensions PALEOboxes.NamedDimension[] allocating 7 variables (hostdep=nothing) [ Info: Domain ocean data dimensions PALEOboxes.NamedDimension[] allocating 5 variables (hostdep=nothing) [ Info: set_default_solver_view: ┌ Info: SolverView: │ host-dependent Variables: │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ Domain operatorID VF_StateExplicit VF_Total VF_Constraint VF_StateTotal VF_State VF_Undefined │ global 0 2 0 0 0 0 0 │ ocean 0 1 0 0 0 0 0 │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ Total - 3 0 0 0 0 0 │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ n_state_vars 3 (stateexplicit 3 + statetotal 0 + state 0) │ n_equations 3 (stateexplicit 3 + total 0 + constraint 0) │ including all host-dependent non-state Variables └ host-dependent non-state Variables (:vfunction PB.VF_Undefined): Any[] ┌ Info: │ ================================================================================ │ initialize_reactiondata! (modeldata arrays_indices=1:1) └ ================================================================================ ┌ Info: │ ================================================================================ │ dispatch_setup :setup └ ================================================================================ [ Info: ocean.const_volume.setup_initialvalue_vars_default: [ Info: init_values! :initial_value ocean.volume = 10.0 ┌ Info: │ ================================================================================ │ dispatch_setup :norm_value └ ================================================================================ [ Info: init_values! :norm_value global.A = 3.193e17, delta=1.0 (fixed delta value to calculate norm) [ Info: init_values! :norm_value global.O = 3.7e18 [ Info: ocean.reservoir_tracer.setup_initialvalue_vars_default: [ Info: init_values! :norm_value ocean.T = 10.0 * volume ┌ Info: │ ================================================================================ │ dispatch_setup :initial_value └ ================================================================================ [ Info: init_values! :initial_value global.A = 3.193e18, delta=2.0 [ Info: init_values! :initial_value global.O = 3.7e19 [ Info: ocean.reservoir_tracer.setup_initialvalue_vars_default: [ Info: init_values! :initial_value ocean.T = 1.0 * volume ┌ Info: │ ================================================================================ │ PALEOmodel.initialize! done └ ================================================================================ VariableAggregatorNamed(modeldata=ModelData(model=Model(config_files='["/home/pkgeval/.julia/packages/PALEOmodel/uXiph/test/configreservoirs.yaml"]', name='model1'), domain_data=Tuple{DataType, String}[(Float64, "base")]), arrays_idx=1, global.*[:A, :A_delta, :A_norm, :A_sms, :O, :O_norm, :O_sms], ocean.*[:T, :T_conc, :T_sms, :T_total, :volume], ) ┌ Info: │ ================================================================================ │ create_model_from_config: configmodel model1 │ config_file: /home/pkgeval/.julia/packages/PALEOmodel/uXiph/test/configreservoirs.yaml └ ================================================================================ ┌ Info: Model.parameters: └ CIsotope = IsotopeLinear ┌ Info: │ ================================================================================ │ creating Domains └ ================================================================================ [ Info: generated Reaction catalog with 22 Reactions ┌ Info: │ ================================================================================ │ creating domain 'global' ID=1 └ ================================================================================ ┌ Info: create_reaction_from_config: global.reservoir_A classname ReactionReservoirScalar │ set parameters: [config.yaml] field_data =external%CIsotope │ expandvalue: external%CIsotope -> IsotopeLinear │ after substitution field_data=IsotopeLinear │ set parameters: [Default] const =false └ set parameters: [Default] state_norm =false ┌ Info: create_reaction_from_config: global.reservoir_O classname ReactionReservoirScalar │ set parameters: [Default] field_data =PALEOboxes.ScalarData │ set parameters: [Default] const =false └ set parameters: [Default] state_norm =false ┌ Info: │ ================================================================================ │ creating domain 'ocean' ID=2 └ ================================================================================ ┌ Info: create_reaction_from_config: ocean.reservoir_tracer classname ReactionReservoirTotal │ set parameters: [Default] field_data =PALEOboxes.ScalarData │ set parameters: [Default] total =true │ set parameters: [Default] limit_delta_conc =0.0 └ set parameters: [Default] state_conc =false ┌ Info: create_reaction_from_config: ocean.const_volume classname ReactionConst └ set parameters: [config.yaml] constnames =["volume"] ┌ Info: create_reaction_from_config: ocean.grid classname ReactionUnstructuredVectorGrid └ set parameters: [config.yaml] ncells =10 ┌ Info: │ ================================================================================ │ set_model_geometry └ ================================================================================ [ Info: set_model_geometry ocean.grid [ Info: set ocean Domain size=10 grid=UnstructuredVectorGrid(ncells=10, cellnames=Dict{Symbol, Int64}(), subdomains: String[]) ┌ Info: │ ================================================================================ │ register_reaction_methods! └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables: first pass └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables: register_reaction_dynamic_methods and configure variables └ ================================================================================ ┌ Info: _configure_variables: ReactionReservoirScalar global.reservoir_A variable_links: │ set variable_links: R -> A │ set variable_links: R_sms -> A_sms │ set variable_links: R_norm -> A_norm │ set variable_links: R_delta -> A_delta │ _configure_variables: ReactionReservoirScalar global.reservoir_A variable_attributes: │ set attribute: R :norm_value = 3.193e17 │ set attribute: R :initial_value = 3.193e18 └ set attribute: R :initial_delta = 2.0 ┌ Info: _configure_variables: ReactionReservoirScalar global.reservoir_O variable_links: │ set variable_links: R -> O │ set variable_links: R_sms -> O_sms │ set variable_links: R_norm -> O_norm │ _configure_variables: ReactionReservoirScalar global.reservoir_O variable_attributes: │ set attribute: R :norm_value = 3.7e18 └ set attribute: R :initial_value = 3.7e19 ┌ Info: _configure_variables: ReactionReservoir ocean.reservoir_tracer variable_links: │ set variable_links: R -> T │ set variable_links: R_sms -> T_sms │ set variable_links: R_total -> T_total │ set variable_links: R_conc -> T_conc │ _configure_variables: ReactionReservoir ocean.reservoir_tracer variable_attributes: │ set attribute: R :norm_value = 10.0 └ set attribute: R :initial_value = 1.0 ┌ Info: _configure_variables: ReactionConst ocean.const_volume variable_attributes: └ set attribute: volume :initial_value = 10.0 ┌ Info: │ ================================================================================ │ link_variables: second pass: └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables! unlinked variables: └ ================================================================================ ┌ Info: │ ================================================================================ │ create_model_from_config: done └ ================================================================================ ┌ Info: │ ================================================================================ │ PALEOmodel.initialize! start └ ================================================================================ ┌ Info: │ ================================================================================ │ allocate_variables! (modeldata arrays_idx=1) └ ================================================================================ [ Info: Domain global data dimensions PALEOboxes.NamedDimension[] allocating 7 variables (hostdep=nothing) [ Info: Domain ocean data dimensions PALEOboxes.NamedDimension[] allocating 5 variables (hostdep=nothing) [ Info: set_default_solver_view: ┌ Info: SolverView: │ host-dependent Variables: │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ Domain operatorID VF_StateExplicit VF_Total VF_Constraint VF_StateTotal VF_State VF_Undefined │ global 0 2 0 0 0 0 0 │ ocean 0 1 0 0 0 0 0 │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ Total - 3 0 0 0 0 0 │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ n_state_vars 3 (stateexplicit 3 + statetotal 0 + state 0) │ n_equations 3 (stateexplicit 3 + total 0 + constraint 0) │ including all host-dependent non-state Variables └ host-dependent non-state Variables (:vfunction PB.VF_Undefined): Any[] ┌ Info: │ ================================================================================ │ initialize_reactiondata! (modeldata arrays_indices=1:1) └ ================================================================================ ┌ Info: │ ================================================================================ │ dispatch_setup :setup └ ================================================================================ [ Info: ocean.const_volume.setup_initialvalue_vars_default: [ Info: init_values! :initial_value ocean.volume = 10.0 ┌ Info: │ ================================================================================ │ dispatch_setup :norm_value └ ================================================================================ [ Info: init_values! :norm_value global.A = 3.193e17, delta=1.0 (fixed delta value to calculate norm) [ Info: init_values! :norm_value global.O = 3.7e18 [ Info: ocean.reservoir_tracer.setup_initialvalue_vars_default: [ Info: init_values! :norm_value ocean.T = 10.0 * volume ┌ Info: │ ================================================================================ │ dispatch_setup :initial_value └ ================================================================================ [ Info: init_values! :initial_value global.A = 3.193e18, delta=2.0 [ Info: init_values! :initial_value global.O = 3.7e19 [ Info: ocean.reservoir_tracer.setup_initialvalue_vars_default: [ Info: init_values! :initial_value ocean.T = 1.0 * volume ┌ Info: │ ================================================================================ │ PALEOmodel.initialize! done └ ================================================================================ VariableAggregatorNamed(modeldata=ModelData(model=Model(config_files='["/home/pkgeval/.julia/packages/PALEOmodel/uXiph/test/configreservoirs.yaml"]', name='model1'), domain_data=Tuple{DataType, String}[(Float64, "base")]), arrays_idx=1, global.*[:A, :A_delta, :A_norm, :A_sms, :O, :O_norm, :O_sms], ocean.*[:T, :T_conc, :T_sms, :T_total, :volume], ) ┌ Info: │ ================================================================================ │ create_model_from_config: configmodel model1 │ config_file: /home/pkgeval/.julia/packages/PALEOmodel/uXiph/test/configreservoirs.yaml └ ================================================================================ ┌ Info: Model.parameters: └ CIsotope = IsotopeLinear ┌ Info: │ ================================================================================ │ creating Domains └ ================================================================================ [ Info: generated Reaction catalog with 22 Reactions ┌ Info: │ ================================================================================ │ creating domain 'global' ID=1 └ ================================================================================ ┌ Info: create_reaction_from_config: global.reservoir_A classname ReactionReservoirScalar │ set parameters: [config.yaml] field_data =external%CIsotope │ expandvalue: external%CIsotope -> IsotopeLinear │ after substitution field_data=IsotopeLinear │ set parameters: [Default] const =false └ set parameters: [Default] state_norm =false ┌ Info: create_reaction_from_config: global.reservoir_O classname ReactionReservoirScalar │ set parameters: [Default] field_data =PALEOboxes.ScalarData │ set parameters: [Default] const =false └ set parameters: [Default] state_norm =false ┌ Info: │ ================================================================================ │ creating domain 'ocean' ID=2 └ ================================================================================ ┌ Info: create_reaction_from_config: ocean.reservoir_tracer classname ReactionReservoirTotal │ set parameters: [Default] field_data =PALEOboxes.ScalarData │ set parameters: [Default] total =true │ set parameters: [Default] limit_delta_conc =0.0 └ set parameters: [Default] state_conc =false ┌ Info: create_reaction_from_config: ocean.const_volume classname ReactionConst └ set parameters: [config.yaml] constnames =["volume"] ┌ Info: create_reaction_from_config: ocean.grid classname ReactionUnstructuredVectorGrid └ set parameters: [config.yaml] ncells =10 ┌ Info: │ ================================================================================ │ set_model_geometry └ ================================================================================ [ Info: set_model_geometry ocean.grid [ Info: set ocean Domain size=10 grid=UnstructuredVectorGrid(ncells=10, cellnames=Dict{Symbol, Int64}(), subdomains: String[]) ┌ Info: │ ================================================================================ │ register_reaction_methods! └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables: first pass └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables: register_reaction_dynamic_methods and configure variables └ ================================================================================ ┌ Info: _configure_variables: ReactionReservoirScalar global.reservoir_A variable_links: │ set variable_links: R -> A │ set variable_links: R_sms -> A_sms │ set variable_links: R_norm -> A_norm │ set variable_links: R_delta -> A_delta │ _configure_variables: ReactionReservoirScalar global.reservoir_A variable_attributes: │ set attribute: R :norm_value = 3.193e17 │ set attribute: R :initial_value = 3.193e18 └ set attribute: R :initial_delta = 2.0 ┌ Info: _configure_variables: ReactionReservoirScalar global.reservoir_O variable_links: │ set variable_links: R -> O │ set variable_links: R_sms -> O_sms │ set variable_links: R_norm -> O_norm │ _configure_variables: ReactionReservoirScalar global.reservoir_O variable_attributes: │ set attribute: R :norm_value = 3.7e18 └ set attribute: R :initial_value = 3.7e19 ┌ Info: _configure_variables: ReactionReservoir ocean.reservoir_tracer variable_links: │ set variable_links: R -> T │ set variable_links: R_sms -> T_sms │ set variable_links: R_total -> T_total │ set variable_links: R_conc -> T_conc │ _configure_variables: ReactionReservoir ocean.reservoir_tracer variable_attributes: │ set attribute: R :norm_value = 10.0 └ set attribute: R :initial_value = 1.0 ┌ Info: _configure_variables: ReactionConst ocean.const_volume variable_attributes: └ set attribute: volume :initial_value = 10.0 ┌ Info: │ ================================================================================ │ link_variables: second pass: └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables! unlinked variables: └ ================================================================================ ┌ Info: │ ================================================================================ │ create_model_from_config: done └ ================================================================================ ┌ Info: │ ================================================================================ │ PALEOmodel.initialize! start └ ================================================================================ ┌ Info: │ ================================================================================ │ allocate_variables! (modeldata arrays_idx=1) └ ================================================================================ [ Info: Domain global data dimensions PALEOboxes.NamedDimension[] allocating 7 variables (hostdep=nothing) [ Info: Domain ocean data dimensions PALEOboxes.NamedDimension[] allocating 5 variables (hostdep=nothing) [ Info: set_default_solver_view: ┌ Info: SolverView: │ host-dependent Variables: │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ Domain operatorID VF_StateExplicit VF_Total VF_Constraint VF_StateTotal VF_State VF_Undefined │ global 0 2 0 0 0 0 0 │ ocean 0 1 0 0 0 0 0 │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ Total - 3 0 0 0 0 0 │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ n_state_vars 3 (stateexplicit 3 + statetotal 0 + state 0) │ n_equations 3 (stateexplicit 3 + total 0 + constraint 0) │ including all host-dependent non-state Variables └ host-dependent non-state Variables (:vfunction PB.VF_Undefined): Any[] ┌ Info: │ ================================================================================ │ initialize_reactiondata! (modeldata arrays_indices=1:1) └ ================================================================================ ┌ Info: │ ================================================================================ │ dispatch_setup :setup └ ================================================================================ [ Info: ocean.const_volume.setup_initialvalue_vars_default: [ Info: init_values! :initial_value ocean.volume = 10.0 ┌ Info: │ ================================================================================ │ dispatch_setup :norm_value └ ================================================================================ [ Info: init_values! :norm_value global.A = 3.193e17, delta=1.0 (fixed delta value to calculate norm) [ Info: init_values! :norm_value global.O = 3.7e18 [ Info: ocean.reservoir_tracer.setup_initialvalue_vars_default: [ Info: init_values! :norm_value ocean.T = 10.0 * volume ┌ Info: │ ================================================================================ │ dispatch_setup :initial_value └ ================================================================================ [ Info: init_values! :initial_value global.A = 3.193e18, delta=2.0 [ Info: init_values! :initial_value global.O = 3.7e19 [ Info: ocean.reservoir_tracer.setup_initialvalue_vars_default: [ Info: init_values! :initial_value ocean.T = 1.0 * volume ┌ Info: │ ================================================================================ │ PALEOmodel.initialize! done └ ================================================================================ VariableAggregatorNamed(modeldata=ModelData(model=Model(config_files='["/home/pkgeval/.julia/packages/PALEOmodel/uXiph/test/configreservoirs.yaml"]', name='model1'), domain_data=Tuple{DataType, String}[(Float64, "base")]), arrays_idx=1, global.*[:A, :A_delta, :A_norm, :A_sms, :O, :O_norm, :O_sms], ocean.*[:T, :T_conc, :T_sms, :T_total, :volume], ) [ Info: saving to /tmp/jl_mru1KXknSp.nc ... [ Info: done [ Info: loading from /tmp/jl_mru1KXknSp.nc ... ┌ Info: │ ================================================================================ │ create_model_from_config: configmodel model1 │ config_file: /home/pkgeval/.julia/packages/PALEOmodel/uXiph/test/configreservoirs.yaml └ ================================================================================ ┌ Info: Model.parameters: └ CIsotope = IsotopeLinear ┌ Info: │ ================================================================================ │ creating Domains └ ================================================================================ [ Info: generated Reaction catalog with 22 Reactions ┌ Info: │ ================================================================================ │ creating domain 'global' ID=1 └ ================================================================================ ┌ Info: create_reaction_from_config: global.reservoir_A classname ReactionReservoirScalar │ set parameters: [config.yaml] field_data =external%CIsotope │ expandvalue: external%CIsotope -> IsotopeLinear │ after substitution field_data=IsotopeLinear │ set parameters: [Default] const =false └ set parameters: [Default] state_norm =false ┌ Info: create_reaction_from_config: global.reservoir_O classname ReactionReservoirScalar │ set parameters: [Default] field_data =PALEOboxes.ScalarData │ set parameters: [Default] const =false └ set parameters: [Default] state_norm =false ┌ Info: │ ================================================================================ │ creating domain 'ocean' ID=2 └ ================================================================================ ┌ Info: create_reaction_from_config: ocean.reservoir_tracer classname ReactionReservoirTotal │ set parameters: [Default] field_data =PALEOboxes.ScalarData │ set parameters: [Default] total =true │ set parameters: [Default] limit_delta_conc =0.0 └ set parameters: [Default] state_conc =false ┌ Info: create_reaction_from_config: ocean.const_volume classname ReactionConst └ set parameters: [config.yaml] constnames =["volume"] ┌ Info: create_reaction_from_config: ocean.grid classname ReactionUnstructuredVectorGrid └ set parameters: [config.yaml] ncells =10 ┌ Info: │ ================================================================================ │ set_model_geometry └ ================================================================================ [ Info: set_model_geometry ocean.grid [ Info: set ocean Domain size=10 grid=UnstructuredVectorGrid(ncells=10, cellnames=Dict{Symbol, Int64}(), subdomains: String[]) ┌ Info: │ ================================================================================ │ register_reaction_methods! └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables: first pass └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables: register_reaction_dynamic_methods and configure variables └ ================================================================================ ┌ Info: _configure_variables: ReactionReservoirScalar global.reservoir_A variable_links: │ set variable_links: R -> A │ set variable_links: R_sms -> A_sms │ set variable_links: R_norm -> A_norm │ set variable_links: R_delta -> A_delta │ _configure_variables: ReactionReservoirScalar global.reservoir_A variable_attributes: │ set attribute: R :norm_value = 3.193e17 │ set attribute: R :initial_value = 3.193e18 └ set attribute: R :initial_delta = 2.0 ┌ Info: _configure_variables: ReactionReservoirScalar global.reservoir_O variable_links: │ set variable_links: R -> O │ set variable_links: R_sms -> O_sms │ set variable_links: R_norm -> O_norm │ _configure_variables: ReactionReservoirScalar global.reservoir_O variable_attributes: │ set attribute: R :norm_value = 3.7e18 └ set attribute: R :initial_value = 3.7e19 ┌ Info: _configure_variables: ReactionReservoir ocean.reservoir_tracer variable_links: │ set variable_links: R -> T │ set variable_links: R_sms -> T_sms │ set variable_links: R_total -> T_total │ set variable_links: R_conc -> T_conc │ _configure_variables: ReactionReservoir ocean.reservoir_tracer variable_attributes: │ set attribute: R :norm_value = 10.0 └ set attribute: R :initial_value = 1.0 ┌ Info: _configure_variables: ReactionConst ocean.const_volume variable_attributes: └ set attribute: volume :initial_value = 10.0 ┌ Info: │ ================================================================================ │ link_variables: second pass: └ ================================================================================ ┌ Info: │ ================================================================================ │ link_variables! unlinked variables: └ ================================================================================ ┌ Info: │ ================================================================================ │ create_model_from_config: done └ ================================================================================ ┌ Info: │ ================================================================================ │ PALEOmodel.initialize! start └ ================================================================================ ┌ Info: │ ================================================================================ │ allocate_variables! (modeldata arrays_idx=1) └ ================================================================================ [ Info: Domain global data dimensions PALEOboxes.NamedDimension[] allocating 7 variables (hostdep=nothing) [ Info: Domain ocean data dimensions PALEOboxes.NamedDimension[] allocating 5 variables (hostdep=nothing) [ Info: set_default_solver_view: ┌ Info: SolverView: │ host-dependent Variables: │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ Domain operatorID VF_StateExplicit VF_Total VF_Constraint VF_StateTotal VF_State VF_Undefined │ global 0 2 0 0 0 0 0 │ ocean 0 1 0 0 0 0 0 │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ Total - 3 0 0 0 0 0 │ ------------------------------------------------------------------------------------------------------------------------------------------------ │ n_state_vars 3 (stateexplicit 3 + statetotal 0 + state 0) │ n_equations 3 (stateexplicit 3 + total 0 + constraint 0) │ including all host-dependent non-state Variables └ host-dependent non-state Variables (:vfunction PB.VF_Undefined): Any[] ┌ Info: │ ================================================================================ │ initialize_reactiondata! (modeldata arrays_indices=1:1) └ ================================================================================ ┌ Info: │ ================================================================================ │ dispatch_setup :setup └ ================================================================================ [ Info: ocean.const_volume.setup_initialvalue_vars_default: [ Info: init_values! :initial_value ocean.volume = 10.0 ┌ Info: │ ================================================================================ │ dispatch_setup :norm_value └ ================================================================================ [ Info: init_values! :norm_value global.A = 3.193e17, delta=1.0 (fixed delta value to calculate norm) [ Info: init_values! :norm_value global.O = 3.7e18 [ Info: ocean.reservoir_tracer.setup_initialvalue_vars_default: [ Info: init_values! :norm_value ocean.T = 10.0 * volume ┌ Info: │ ================================================================================ │ dispatch_setup :initial_value └ ================================================================================ [ Info: init_values! :initial_value global.A = 3.193e18, delta=2.0 [ Info: init_values! :initial_value global.O = 3.7e19 [ Info: ocean.reservoir_tracer.setup_initialvalue_vars_default: [ Info: init_values! :initial_value ocean.T = 1.0 * volume ┌ Info: │ ================================================================================ │ PALEOmodel.initialize! done └ ================================================================================ VariableAggregatorNamed(modeldata=ModelData(model=Model(config_files='["/home/pkgeval/.julia/packages/PALEOmodel/uXiph/test/configreservoirs.yaml"]', name='model1'), domain_data=Tuple{DataType, String}[(Float64, "base")]), arrays_idx=1, global.*[:A, :A_delta, :A_norm, :A_sms, :O, :O_norm, :O_sms], ocean.*[:T, :T_conc, :T_sms, :T_total, :volume], ) Test Summary: | Pass Broken Total Time All tests | 299 1 300 9m36.2s [KINSOL] KINSolInit scsteptol = 3.67e-11 fnormtol = 1e-08 [KINSOL] KINSolInit nni = 0 nfe = 1 fnorm = 4.117654300623939 [KINSOL] KINFullNewton pnorm = 1.1631e+00 [KINSOL] KINSol nni = 1 nfe = 2 fnorm = 1.279348177536612 [KINSOL] KINFullNewton pnorm = 8.1082e-01 [KINSOL] KINSol nni = 2 nfe = 3 fnorm = 0.2651704195089962 [KINSOL] KINFullNewton pnorm = 2.5636e-01 [KINSOL] KINSol nni = 3 nfe = 4 fnorm = 0.005808364333105495 [KINSOL] KINFullNewton pnorm = 5.8083e-03 [KINSOL] KINSol nni = 4 nfe = 5 fnorm = 6.530005548713926e-08 [KINSOL] KINFullNewton pnorm = 6.5300e-08 [KINSOL] KINSol nni = 5 nfe = 6 fnorm = 8.833842810920609e-21 [KINSOL] KINSol Return value: 0 (KIN_SUCCESS) Testing PALEOmodel tests passed Testing completed after 587.46s PkgEval succeeded after 737.49s