Ran Hodgkin-Huxley benchmarks

docs/src/benchmarks/hodgkinhuxley.md

@@ -378,6 +378,7 @@ Platform Info:
 Environment:
   JULIA_NUM_THREADS = auto
   JULIA_STACKTRACE_MINIMAL = true
+  JULIA_IMAGE_THREADS = 1
 ```
 
 ```@raw html
@@ -395,24 +396,24 @@ Pkg.status()
 
 ```
 Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Project.toml`
-  [f3b72e0c] DiffEqDevTools v2.42.0
-  [31c24e10] Distributions v0.25.103
+  [f3b72e0c] DiffEqDevTools v2.44.0
+  [31c24e10] Distributions v0.25.104
   [7073ff75] IJulia v1.24.2
   [7f56f5a3] LSODA v0.7.5
   [e6f89c97] LoggingExtras v1.0.3
   [e2752cbe] MATLABDiffEq v1.2.0
-⌃ [961ee093] ModelingToolkit v8.73.0
+⌃ [961ee093] ModelingToolkit v8.73.2
   [54ca160b] ODEInterface v0.5.0
   [09606e27] ODEInterfaceDiffEq v3.13.3
-  [1dea7af3] OrdinaryDiffEq v6.59.1
+  [1dea7af3] OrdinaryDiffEq v6.63.0
   [65888b18] ParameterizedFunctions v5.16.0
   [91a5bcdd] Plots v1.39.0
   [bf3e78b0] ProbNumDiffEq v0.13.0 `~/.julia/dev/ProbNumDiffEq`
-  [0bca4576] SciMLBase v2.8.1
+⌃ [0bca4576] SciMLBase v2.10.0
   [505e40e9] SciPyDiffEq v0.2.1
   [ce78b400] SimpleUnPack v1.1.0
-  [90137ffa] StaticArrays v1.6.5
-  [c3572dad] Sundials v4.20.1
+  [90137ffa] StaticArrays v1.8.0
+  [c3572dad] Sundials v4.22.1
   [44d3d7a6] Weave v0.10.12
   [0518478a] deSolveDiffEq v0.1.1
 Info Packages marked with ⌃ have new versions available and may be upgradable.
@@ -433,15 +434,16 @@ Pkg.status(mode=Pkg.PKGMODE_MANIFEST)
 ```
 Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [47edcb42] ADTypes v0.2.5
-⌅ [c3fe647b] AbstractAlgebra v0.32.5
+⌅ [c3fe647b] AbstractAlgebra v0.33.0
   [621f4979] AbstractFFTs v1.5.0
   [1520ce14] AbstractTrees v0.4.4
   [7d9f7c33] Accessors v0.1.33
-  [79e6a3ab] Adapt v3.7.1
+  [79e6a3ab] Adapt v3.7.2
   [ec485272] ArnoldiMethod v0.2.0
   [c9d4266f] ArrayAllocators v0.3.0
-  [4fba245c] ArrayInterface v7.5.1
-  [6e4b80f9] BenchmarkTools v1.3.2
+  [4fba245c] ArrayInterface v7.6.1
+  [4c555306] ArrayLayouts v1.4.5
+  [6e4b80f9] BenchmarkTools v1.4.0
   [e2ed5e7c] Bijections v0.1.6
   [d1d4a3ce] BitFlags v0.1.8
   [62783981] BitTwiddlingConvenienceFunctions v0.1.5
@@ -461,15 +463,15 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [a80b9123] CommonMark v0.8.12
   [38540f10] CommonSolve v0.2.4
   [bbf7d656] CommonSubexpressions v0.3.0
-  [34da2185] Compat v4.10.0
+  [34da2185] Compat v4.10.1
   [b152e2b5] CompositeTypes v0.1.3
   [a33af91c] CompositionsBase v0.1.2
   [2569d6c7] ConcreteStructs v0.2.3
   [f0e56b4a] ConcurrentUtilities v2.3.0
-⌃ [8f4d0f93] Conda v1.9.1
+  [8f4d0f93] Conda v1.10.0
   [187b0558] ConstructionBase v1.5.4
   [d38c429a] Contour v0.6.2
-  [587fd27a] CovarianceEstimation v0.2.9
+  [587fd27a] CovarianceEstimation v0.2.11
   [adafc99b] CpuId v0.3.1
   [a8cc5b0e] Crayons v4.1.1
   [717857b8] DSP v0.7.9
@@ -478,49 +480,50 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [864edb3b] DataStructures v0.18.15
   [e2d170a0] DataValueInterfaces v1.0.0
   [8bb1440f] DelimitedFiles v1.9.1
-  [2b5f629d] DiffEqBase v6.139.0
-  [459566f4] DiffEqCallbacks v2.33.1
-  [f3b72e0c] DiffEqDevTools v2.42.0
-  [77a26b50] DiffEqNoiseProcess v5.19.0
+  [2b5f629d] DiffEqBase v6.143.0
+  [459566f4] DiffEqCallbacks v2.35.0
+  [f3b72e0c] DiffEqDevTools v2.44.0
+  [77a26b50] DiffEqNoiseProcess v5.20.0
   [163ba53b] DiffResults v1.1.0
   [b552c78f] DiffRules v1.15.1
-  [b4f34e82] Distances v0.10.10
-  [31c24e10] Distributions v0.25.103
+  [b4f34e82] Distances v0.10.11
+  [31c24e10] Distributions v0.25.104
   [ffbed154] DocStringExtensions v0.9.3
 ⌅ [5b8099bc] DomainSets v0.6.7
   [fa6b7ba4] DualNumbers v0.6.8
   [7c1d4256] DynamicPolynomials v0.5.3
   [b305315f] Elliptic v1.0.1
   [4e289a0a] EnumX v1.0.4
-  [f151be2c] EnzymeCore v0.6.3
+  [f151be2c] EnzymeCore v0.6.4
   [6912e4f1] Espresso v0.6.1
   [460bff9d] ExceptionUnwrapping v0.1.9
   [d4d017d3] ExponentialUtilities v1.25.0
   [e2ba6199] ExprTools v0.1.10
   [c87230d0] FFMPEG v0.4.1
-  [7a1cc6ca] FFTW v1.7.1
+  [7a1cc6ca] FFTW v1.7.2
   [7034ab61] FastBroadcast v0.2.8
   [9aa1b823] FastClosures v0.3.2
-  [442a2c76] FastGaussQuadrature v1.0.0
+  [442a2c76] FastGaussQuadrature v1.0.1
   [29a986be] FastLapackInterface v2.0.0
-  [1a297f60] FillArrays v1.7.0
+  [1a297f60] FillArrays v1.9.3
   [6a86dc24] FiniteDiff v2.21.1
+  [b59a298d] FiniteHorizonGramians v0.1.0
   [53c48c17] FixedPointNumbers v0.8.4
   [59287772] Formatting v0.4.2
   [f6369f11] ForwardDiff v0.10.36
   [069b7b12] FunctionWrappers v1.1.3
   [77dc65aa] FunctionWrappersWrappers v0.1.3
   [d9f16b24] Functors v0.4.5
   [46192b85] GPUArraysCore v0.1.5
-  [28b8d3ca] GR v0.72.10
+⌅ [28b8d3ca] GR v0.72.10
   [43dcc890] GaussianDistributions v0.5.2
   [c145ed77] GenericSchur v0.5.3
   [c27321d9] Glob v1.3.1
   [86223c79] Graphs v1.9.0
   [42e2da0e] Grisu v1.0.2
-⌅ [0b43b601] Groebner v0.4.4
-  [d5909c97] GroupsCore v0.4.0
-  [cd3eb016] HTTP v1.10.0
+  [0b43b601] Groebner v0.5.0
+⌅ [d5909c97] GroupsCore v0.4.2
+  [cd3eb016] HTTP v1.10.1
   [eafb193a] Highlights v0.5.2
   [3e5b6fbb] HostCPUFeatures v0.1.16
   [34004b35] HypergeometricFunctions v0.3.23
@@ -535,25 +538,26 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [92d709cd] IrrationalConstants v0.2.2
   [c8e1da08] IterTools v1.8.0
   [82899510] IteratorInterfaceExtensions v1.0.0
-  [1019f520] JLFzf v0.1.6
+  [1019f520] JLFzf v0.1.7
   [692b3bcd] JLLWrappers v1.5.0
   [682c06a0] JSON v0.21.4
-  [98e50ef6] JuliaFormatter v1.0.42
-  [ccbc3e58] JumpProcesses v9.8.0
+  [98e50ef6] JuliaFormatter v1.0.45
+  [ccbc3e58] JumpProcesses v9.10.1
   [ef3ab10e] KLU v0.4.1
-  [2c470bb0] Kronecker v0.5.4
-  [ba0b0d4f] Krylov v0.9.4
+  [2c470bb0] Kronecker v0.5.5
+  [ba0b0d4f] Krylov v0.9.5
   [7f56f5a3] LSODA v0.7.5
   [b964fa9f] LaTeXStrings v1.3.1
-  [2ee39098] LabelledArrays v1.14.0
+  [2ee39098] LabelledArrays v1.15.0
   [984bce1d] LambertW v0.4.6
   [23fbe1c1] Latexify v0.16.1
   [73f95e8e] LatticeRules v0.0.1
   [10f19ff3] LayoutPointers v0.1.15
   [50d2b5c4] Lazy v0.15.1
+  [5078a376] LazyArrays v1.8.3
   [1d6d02ad] LeftChildRightSiblingTrees v0.2.0
   [d3d80556] LineSearches v7.2.0
-  [7ed4a6bd] LinearSolve v2.20.0
+  [7ed4a6bd] LinearSolve v2.21.0
   [2ab3a3ac] LogExpFunctions v0.3.26
   [e6f89c97] LoggingExtras v1.0.3
   [bdcacae8] LoopVectorization v0.12.166
@@ -562,29 +566,31 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [d8e11817] MLStyle v0.4.17
   [1914dd2f] MacroTools v0.5.11
   [d125e4d3] ManualMemory v0.1.8
-  [739be429] MbedTLS v1.1.8
+  [a3b82374] MatrixFactorizations v2.1.0
+  [bb5d69b7] MaybeInplace v0.1.1
+  [739be429] MbedTLS v1.1.9
   [442fdcdd] Measures v0.3.2
   [e1d29d7a] Missings v1.1.0
-⌃ [961ee093] ModelingToolkit v8.73.0
+⌃ [961ee093] ModelingToolkit v8.73.2
   [46d2c3a1] MuladdMacro v0.2.4
-  [102ac46a] MultivariatePolynomials v0.5.2
+  [102ac46a] MultivariatePolynomials v0.5.3
   [ffc61752] Mustache v1.0.19
-  [d8a4904e] MutableArithmetics v1.3.3
+  [d8a4904e] MutableArithmetics v1.4.0
   [d41bc354] NLSolversBase v7.8.3
   [2774e3e8] NLsolve v4.5.1
   [77ba4419] NaNMath v1.0.2
-⌅ [356022a1] NamedDims v0.2.50
-  [8913a72c] NonlinearSolve v2.8.0
+  [356022a1] NamedDims v1.2.1
+  [8913a72c] NonlinearSolve v3.1.0
   [54ca160b] ODEInterface v0.5.0
   [09606e27] ODEInterfaceDiffEq v3.13.3
   [6fd5a793] Octavian v0.3.27
   [6fe1bfb0] OffsetArrays v1.12.10
   [4d8831e6] OpenSSL v1.4.1
   [429524aa] Optim v1.7.8
-  [bac558e1] OrderedCollections v1.6.2
-  [1dea7af3] OrdinaryDiffEq v6.59.1
-  [90014a1f] PDMats v0.11.29
-  [fe68d972] PSDMatrices v0.4.6
+  [bac558e1] OrderedCollections v1.6.3
+  [1dea7af3] OrdinaryDiffEq v6.63.0
+  [90014a1f] PDMats v0.11.31
+  [fe68d972] PSDMatrices v0.4.7
   [65ce6f38] PackageExtensionCompat v1.0.2
   [65888b18] ParameterizedFunctions v5.16.0
   [d96e819e] Parameters v0.12.3
@@ -600,36 +606,35 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
 ⌅ [f27b6e38] Polynomials v3.2.13
   [2dfb63ee] PooledArrays v1.4.3
   [85a6dd25] PositiveFactorizations v0.2.4
-  [d236fae5] PreallocationTools v0.4.12
+  [d236fae5] PreallocationTools v0.4.13
   [aea7be01] PrecompileTools v1.2.0
   [21216c6a] Preferences v1.4.1
-  [08abe8d2] PrettyTables v2.3.0
+  [08abe8d2] PrettyTables v2.3.1
   [27ebfcd6] Primes v0.5.5
   [bf3e78b0] ProbNumDiffEq v0.13.0 `~/.julia/dev/ProbNumDiffEq`
   [33c8b6b6] ProgressLogging v0.1.4
-  [438e738f] PyCall v1.96.2
+  [438e738f] PyCall v1.96.4
   [1fd47b50] QuadGK v2.9.1
-⌃ [8a4e6c94] QuasiMonteCarlo v0.3.2
+  [8a4e6c94] QuasiMonteCarlo v0.3.3
   [6f49c342] RCall v0.13.18
   [74087812] Random123 v1.6.1
   [fb686558] RandomExtensions v0.4.4
   [e6cf234a] RandomNumbers v1.5.3
   [3cdcf5f2] RecipesBase v1.3.4
   [01d81517] RecipesPipeline v0.6.12
-  [731186ca] RecursiveArrayTools v2.38.10
+⌅ [731186ca] RecursiveArrayTools v2.38.10
   [f2c3362d] RecursiveFactorization v0.2.21
   [189a3867] Reexport v1.2.2
   [05181044] RelocatableFolders v1.0.1
   [ae029012] Requires v1.3.0
   [ae5879a3] ResettableStacks v1.1.1
   [79098fc4] Rmath v0.7.1
-  [47965b36] RootedTrees v2.19.2
+  [47965b36] RootedTrees v2.20.0
   [7e49a35a] RuntimeGeneratedFunctions v0.5.12
   [fdea26ae] SIMD v3.4.6
   [94e857df] SIMDTypes v0.1.0
   [476501e8] SLEEFPirates v0.6.42
-  [0bca4576] SciMLBase v2.8.1
-  [e9a6253c] SciMLNLSolve v0.1.9
+⌃ [0bca4576] SciMLBase v2.10.0
   [c0aeaf25] SciMLOperators v0.3.7
   [505e40e9] SciPyDiffEq v0.2.1
   [6c6a2e73] Scratch v1.2.1
@@ -638,56 +643,54 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [1277b4bf] ShiftedArrays v2.0.0
   [992d4aef] Showoff v1.0.3
   [777ac1f9] SimpleBufferStream v1.1.0
-  [727e6d20] SimpleNonlinearSolve v0.1.25
+  [727e6d20] SimpleNonlinearSolve v1.0.2
   [699a6c99] SimpleTraits v0.9.4
   [ce78b400] SimpleUnPack v1.1.0
-  [66db9d55] SnoopPrecompile v1.0.3
   [ed01d8cd] Sobol v1.5.0
   [b85f4697] SoftGlobalScope v1.1.0
   [a2af1166] SortingAlgorithms v1.2.0
-⌃ [47a9eef4] SparseDiffTools v2.11.0
+  [47a9eef4] SparseDiffTools v2.15.0
   [e56a9233] Sparspak v0.3.9
   [276daf66] SpecialFunctions v2.3.1
   [928aab9d] SpecialMatrices v3.0.0
   [aedffcd0] Static v0.8.8
-  [0d7ed370] StaticArrayInterface v1.4.1
-  [90137ffa] StaticArrays v1.6.5
+  [0d7ed370] StaticArrayInterface v1.5.0
+  [90137ffa] StaticArrays v1.8.0
   [1e83bf80] StaticArraysCore v1.4.2
   [82ae8749] StatsAPI v1.7.0
   [2913bbd2] StatsBase v0.34.2
   [4c63d2b9] StatsFuns v1.3.0
   [3eaba693] StatsModels v0.7.3
-  [7792a7ef] StrideArraysCore v0.5.1
+  [7792a7ef] StrideArraysCore v0.5.2
   [69024149] StringEncodings v0.3.7
   [892a3eda] StringManipulation v0.3.4
   [09ab397b] StructArrays v0.6.16
-  [c3572dad] Sundials v4.20.1
-  [2efcf032] SymbolicIndexingInterface v0.2.2
-  [d1185830] SymbolicUtils v1.4.0
-  [0c5d862f] Symbolics v5.10.0
+  [c3572dad] Sundials v4.22.1
+⌅ [2efcf032] SymbolicIndexingInterface v0.2.2
+⌃ [d1185830] SymbolicUtils v1.4.0
+⌃ [0c5d862f] Symbolics v5.11.0
   [3783bdb8] TableTraits v1.0.1
   [bd369af6] Tables v1.11.1
-  [92b13dbe] TaylorIntegration v0.14.4
-  [6aa5eb33] TaylorSeries v0.15.2
+  [92b13dbe] TaylorIntegration v0.14.5
+  [6aa5eb33] TaylorSeries v0.15.4
   [62fd8b95] TensorCore v0.1.1
   [5d786b92] TerminalLoggers v0.1.7
   [8290d209] ThreadingUtilities v0.5.2
   [a759f4b9] TimerOutputs v0.5.23
   [c751599d] ToeplitzMatrices v0.8.2
   [0796e94c] Tokenize v0.5.26
   [3bb67fe8] TranscodingStreams v0.10.2
-  [a2a6695c] TreeViews v0.3.0
   [d5829a12] TriangularSolve v0.1.20
   [410a4b4d] Tricks v0.1.8
   [781d530d] TruncatedStacktraces v1.4.0
   [5c2747f8] URIs v1.5.1
   [3a884ed6] UnPack v1.0.2
   [1cfade01] UnicodeFun v0.4.1
-  [1986cc42] Unitful v1.18.0
+  [1986cc42] Unitful v1.19.0
   [45397f5d] UnitfulLatexify v1.6.3
   [a7c27f48] Unityper v0.1.5
   [41fe7b60] Unzip v0.2.0
-  [3d5dd08c] VectorizationBase v0.21.64
+  [3d5dd08c] VectorizationBase v0.21.65
   [81def892] VersionParsing v1.3.0
   [19fa3120] VertexSafeGraphs v0.2.0
   [44d3d7a6] Weave v0.10.12
@@ -705,13 +708,13 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [d7e528f0] FreeType2_jll v2.13.1+0
   [559328eb] FriBidi_jll v1.0.10+0
   [0656b61e] GLFW_jll v3.3.8+0
-  [d2c73de3] GR_jll v0.72.10+0
+⌅ [d2c73de3] GR_jll v0.72.10+0
   [78b55507] Gettext_jll v0.21.0+0
   [7746bdde] Glib_jll v2.76.5+0
   [3b182d85] Graphite2_jll v1.3.14+0
   [2e76f6c2] HarfBuzz_jll v2.8.1+1
-  [1d5cc7b8] IntelOpenMP_jll v2023.2.0+0
-  [aacddb02] JpegTurbo_jll v2.1.91+0
+  [1d5cc7b8] IntelOpenMP_jll v2024.0.0+0
+  [aacddb02] JpegTurbo_jll v3.0.1+0
   [c1c5ebd0] LAME_jll v3.100.1+0
   [88015f11] LERC_jll v3.0.0+1
   [1d63c593] LLVMOpenMP_jll v15.0.4+0
@@ -723,9 +726,9 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [7add5ba3] Libgpg_error_jll v1.42.0+0
   [94ce4f54] Libiconv_jll v1.17.0+0
   [4b2f31a3] Libmount_jll v2.35.0+0
-  [89763e89] Libtiff_jll v4.5.1+1
+⌅ [89763e89] Libtiff_jll v4.5.1+1
   [38a345b3] Libuuid_jll v2.36.0+0
-  [856f044c] MKL_jll v2023.2.0+0
+  [856f044c] MKL_jll v2024.0.0+0
   [c771fb93] ODEInterface_jll v0.0.1+0
   [e7412a2a] Ogg_jll v1.3.5+1
   [458c3c95] OpenSSL_jll v3.0.12+0
@@ -738,7 +741,7 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [a44049a8] Vulkan_Loader_jll v1.3.243+0
   [a2964d1f] Wayland_jll v1.21.0+1
   [2381bf8a] Wayland_protocols_jll v1.25.0+0
-  [02c8fc9c] XML2_jll v2.11.5+0
+  [02c8fc9c] XML2_jll v2.12.2+0
   [aed1982a] XSLT_jll v1.1.34+0
   [ffd25f8a] XZ_jll v5.4.5+0
   [f67eecfb] Xorg_libICE_jll v1.0.10+1
@@ -768,14 +771,14 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [8f1865be] ZeroMQ_jll v4.3.4+0
   [3161d3a3] Zstd_jll v1.5.5+0
   [35ca27e7] eudev_jll v3.2.9+0
-⌅ [214eeab7] fzf_jll v0.35.1+0
+  [214eeab7] fzf_jll v0.43.0+0
   [1a1c6b14] gperf_jll v3.1.1+0
   [a4ae2306] libaom_jll v3.4.0+0
   [0ac62f75] libass_jll v0.15.1+0
   [2db6ffa8] libevdev_jll v1.11.0+0
   [f638f0a6] libfdk_aac_jll v2.0.2+0
   [36db933b] libinput_jll v1.18.0+0
-  [b53b4c65] libpng_jll v1.6.38+0
+  [b53b4c65] libpng_jll v1.6.40+0
   [a9144af2] libsodium_jll v1.0.20+0
   [f27f6e37] libvorbis_jll v1.3.7+1
   [009596ad] mtdev_jll v1.1.6+0