Re-run yet again and commit

benchmarks/vanderpol.jmd

@@ -107,17 +107,17 @@ plot(wp, x=:L2, palette=Plots.palette([:blue, :red], length(_setups)))
 
 ## Calibration
 ```julia
-plot(wp, x=:final, y=:chi2_final, yguide="Chi-squared (final)"
+plot(wp, x=:final, y=:chi2_final, yguide="Chi-squared (final)",
      palette=Plots.palette([:blue, :red], length(_setups)))
 ```
 
 ```julia
-plot(wp, x=:l2, y=:chi2_steps, yguide="Chi-squared (discrete steps)"
+plot(wp, x=:l2, y=:chi2_steps, yguide="Chi-squared (discrete steps)",
      palette=Plots.palette([:blue, :red], length(_setups)))
 ```
 
 ```julia
-plot(wp, x=:L2, y=:chi2_interp, yguide="Chi-squared (dense)"
+plot(wp, x=:L2, y=:chi2_interp, yguide="Chi-squared (dense)",
      palette=Plots.palette([:blue, :red], length(_setups)))
 ```
 
@@ -253,12 +253,12 @@ plot(wp, x=:L2, color=[1 1 1 1 2 2 2 2])
 ### Calibration
 
 ```julia
-plot(wp, x=:final, y=:chi2_final, yguide="Chi-squared (final)"
+plot(wp, x=:final, y=:chi2_final, yguide="Chi-squared (final)",
      palette=Plots.palette([:blue, :red], length(_setups)))
 ```
 
 ```julia
-plot(wp, x=:L2, y=:chi2_interp, yguide="Chi-squared (dense)"
+plot(wp, x=:L2, y=:chi2_interp, yguide="Chi-squared (dense)",
      palette=Plots.palette([:blue, :red], length(_setups)))
 ```
 

docs/src/benchmarks/hodgkinhuxley.md

@@ -119,11 +119,7 @@ wp = WorkPrecisionSet(
 plot(wp, title="Adaptive steps - no smoothing", color=colors)
 ```
 
-```
-Error: InterruptException:
-```
-
-
+![](figures/hodgkinhuxley_3_1.svg)
 
 
 
@@ -161,11 +157,7 @@ wp = WorkPrecisionSet(
 plot(wp, title="Adaptive steps - with smoothing", color=colors)
 ```
 
-```
-Error: InterruptException:
-```
-
-
+![](figures/hodgkinhuxley_4_1.svg)
 
 
 
@@ -215,11 +207,7 @@ wp = WorkPrecisionSet(
 plot(wp, title="Fixed steps - no smoothing", color=colors)
 ```
 
-```
-Error: InterruptException:
-```
-
-
+![](figures/hodgkinhuxley_6_1.svg)
 
 
 
@@ -258,11 +246,7 @@ wp = WorkPrecisionSet(
 plot(wp, title="Fixed steps - with smoothing", color=colors)
 ```
 
-```
-Error: InterruptException:
-```
-
-
+![](figures/hodgkinhuxley_7_1.svg)
 
 
 
@@ -271,11 +255,7 @@ Dense errors
 plot(wp, x=:L2, title="Adaptive steps - with smoothing", color=colors)
 ```
 
-```
-Error: UndefVarError: `wp` not defined
-```
-
-
+![](figures/hodgkinhuxley_8_1.svg)
 
 
 
@@ -294,11 +274,11 @@ Build Info:
   Official https://julialang.org/ release
 Platform Info:
   OS: Linux (x86_64-linux-gnu)
-  CPU: 6 × 13th Gen Intel(R) Core(TM) i9-13900K
+  CPU: 12 × Intel(R) Core(TM) i7-6800K CPU @ 3.40GHz
   WORD_SIZE: 64
   LIBM: libopenlibm
-  LLVM: libLLVM-14.0.6 (ORCJIT, goldmont)
-  Threads: 6 on 6 virtual cores
+  LLVM: libLLVM-14.0.6 (ORCJIT, broadwell)
+  Threads: 12 on 12 virtual cores
 Environment:
   JULIA_NUM_THREADS = auto
   JULIA_STACKTRACE_MINIMAL = true
@@ -321,20 +301,23 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Project.toml`
   [7073ff75] IJulia v1.24.2
   [7f56f5a3] LSODA v0.7.5
   [e6f89c97] LoggingExtras v1.0.3
+  [e2752cbe] MATLABDiffEq v1.2.0
   [961ee093] ModelingToolkit v8.72.2
   [54ca160b] ODEInterface v0.5.0
   [09606e27] ODEInterfaceDiffEq v3.13.3
   [1dea7af3] OrdinaryDiffEq v6.59.0
   [65888b18] ParameterizedFunctions v5.16.0
   [91a5bcdd] Plots v1.39.0
   [bf3e78b0] ProbNumDiffEq v0.13.0 `~/.julia/dev/ProbNumDiffEq`
-  [0bca4576] SciMLBase v2.8.0
+⌃ [0bca4576] SciMLBase v2.7.3
   [505e40e9] SciPyDiffEq v0.2.1
   [ce78b400] SimpleUnPack v1.1.0
   [90137ffa] StaticArrays v1.6.5
   [c3572dad] Sundials v4.20.1
   [44d3d7a6] Weave v0.10.12
   [0518478a] deSolveDiffEq v0.1.1
+Info Packages marked with ⌃ have new versions available and may be upgradab
+le.
 ```
 
 
@@ -352,14 +335,13 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
 ⌅ [c3fe647b] AbstractAlgebra v0.32.5
   [621f4979] AbstractFFTs v1.5.0
   [1520ce14] AbstractTrees v0.4.4
-  [7d9f7c33] Accessors v0.1.33
   [79e6a3ab] Adapt v3.7.1
   [ec485272] ArnoldiMethod v0.2.0
   [c9d4266f] ArrayAllocators v0.3.0
   [4fba245c] ArrayInterface v7.5.1
   [6e4b80f9] BenchmarkTools v1.3.2
   [e2ed5e7c] Bijections v0.1.6
-  [d1d4a3ce] BitFlags v0.1.8
+⌃ [d1d4a3ce] BitFlags v0.1.7
   [62783981] BitTwiddlingConvenienceFunctions v0.1.5
   [fa961155] CEnum v0.5.0
   [2a0fbf3d] CPUSummary v0.2.4
@@ -379,7 +361,6 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [bbf7d656] CommonSubexpressions v0.3.0
   [34da2185] Compat v4.10.0
   [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
@@ -415,7 +396,7 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [e2ba6199] ExprTools v0.1.10
   [c87230d0] FFMPEG v0.4.1
   [7a1cc6ca] FFTW v1.7.1
-  [7034ab61] FastBroadcast v0.2.7
+⌃ [7034ab61] FastBroadcast v0.2.7
   [9aa1b823] FastClosures v0.3.2
   [442a2c76] FastGaussQuadrature v1.0.0
   [29a986be] FastLapackInterface v2.0.0
@@ -446,7 +427,6 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [842dd82b] InlineStrings v1.4.0
   [18e54dd8] IntegerMathUtils v0.1.2
   [8197267c] IntervalSets v0.7.8
-  [3587e190] InverseFunctions v0.1.12
   [41ab1584] InvertedIndices v1.3.0
   [92d709cd] IrrationalConstants v0.2.2
   [c8e1da08] IterTools v1.8.0
@@ -464,19 +444,21 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [2ee39098] LabelledArrays v1.14.0
   [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
   [1d6d02ad] LeftChildRightSiblingTrees v0.2.0
   [d3d80556] LineSearches v7.2.0
-  [7ed4a6bd] LinearSolve v2.20.0
+⌃ [7ed4a6bd] LinearSolve v2.17.1
   [2ab3a3ac] LogExpFunctions v0.3.26
   [e6f89c97] LoggingExtras v1.0.3
   [bdcacae8] LoopVectorization v0.12.166
+  [10e44e05] MATLAB v0.8.4
+  [e2752cbe] MATLABDiffEq v1.2.0
+  [33e6dc65] MKL v0.6.1
   [d8e11817] MLStyle v0.4.17
   [1914dd2f] MacroTools v0.5.11
   [d125e4d3] ManualMemory v0.1.8
-  [739be429] MbedTLS v1.1.8
+⌃ [739be429] MbedTLS v1.1.7
   [442fdcdd] Measures v0.3.2
   [e1d29d7a] Missings v1.1.0
   [961ee093] ModelingToolkit v8.72.2
@@ -497,12 +479,12 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [429524aa] Optim v1.7.8
   [bac558e1] OrderedCollections v1.6.2
   [1dea7af3] OrdinaryDiffEq v6.59.0
-  [90014a1f] PDMats v0.11.29
+⌃ [90014a1f] PDMats v0.11.28
   [fe68d972] PSDMatrices v0.4.6
   [65ce6f38] PackageExtensionCompat v1.0.2
   [65888b18] ParameterizedFunctions v5.16.0
   [d96e819e] Parameters v0.12.3
-  [69de0a69] Parsers v2.8.0
+⌃ [69de0a69] Parsers v2.7.2
   [b98c9c47] Pipe v1.3.0
   [32113eaa] PkgBenchmark v0.2.12
   [ccf2f8ad] PlotThemes v3.1.0
@@ -518,20 +500,19 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [aea7be01] PrecompileTools v1.2.0
   [21216c6a] Preferences v1.4.1
   [08abe8d2] PrettyTables v2.2.8
-  [27ebfcd6] Primes v0.5.5
+⌃ [27ebfcd6] Primes v0.5.4
   [bf3e78b0] ProbNumDiffEq v0.13.0 `~/.julia/dev/ProbNumDiffEq`
   [33c8b6b6] ProgressLogging v0.1.4
-  [438e738f] PyCall v1.96.2
+⌃ [438e738f] PyCall v1.96.1
   [1fd47b50] QuadGK v2.9.1
-  [8a4e6c94] QuasiMonteCarlo v0.3.2
   [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
-  [f2c3362d] RecursiveFactorization v0.2.21
+⌃ [f2c3362d] RecursiveFactorization v0.2.20
   [189a3867] Reexport v1.2.2
   [05181044] RelocatableFolders v1.0.1
   [ae029012] Requires v1.3.0
@@ -542,7 +523,7 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [fdea26ae] SIMD v3.4.6
   [94e857df] SIMDTypes v0.1.0
   [476501e8] SLEEFPirates v0.6.42
-  [0bca4576] SciMLBase v2.8.0
+⌃ [0bca4576] SciMLBase v2.7.3
   [e9a6253c] SciMLNLSolve v0.1.9
   [c0aeaf25] SciMLOperators v0.3.7
   [505e40e9] SciPyDiffEq v0.2.1
@@ -556,7 +537,6 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [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
@@ -571,7 +551,7 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [2913bbd2] StatsBase v0.34.2
   [4c63d2b9] StatsFuns v1.3.0
   [3eaba693] StatsModels v0.7.3
-  [7792a7ef] StrideArraysCore v0.5.1
+⌅ [7792a7ef] StrideArraysCore v0.4.17
   [69024149] StringEncodings v0.3.7
   [892a3eda] StringManipulation v0.3.4
   [09ab397b] StructArrays v0.6.16
@@ -581,7 +561,7 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [0c5d862f] Symbolics v5.10.0
   [3783bdb8] TableTraits v1.0.1
   [bd369af6] Tables v1.11.1
-  [92b13dbe] TaylorIntegration v0.14.3
+⌃ [92b13dbe] TaylorIntegration v0.14.3
   [6aa5eb33] TaylorSeries v0.15.2
   [62fd8b95] TensorCore v0.1.1
   [5d786b92] TerminalLoggers v0.1.7
@@ -597,7 +577,7 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [5c2747f8] URIs v1.5.1
   [3a884ed6] UnPack v1.0.2
   [1cfade01] UnicodeFun v0.4.1
-  [1986cc42] Unitful v1.18.0
+⌃ [1986cc42] Unitful v1.17.0
   [45397f5d] UnitfulLatexify v1.6.3
   [a7c27f48] Unityper v0.1.5
   [41fe7b60] Unzip v0.2.0
@@ -744,9 +724,9 @@ Status `~/.julia/dev/ProbNumDiffEq/benchmarks/Manifest.toml`
   [8e850b90] libblastrampoline_jll v5.8.0+0
   [8e850ede] nghttp2_jll v1.48.0+0
   [3f19e933] p7zip_jll v17.4.0+0
-Info Packages marked with ⌅ have new versions available but compatibility c
-onstraints restrict them from upgrading. To see why use `status --outdated 
--m`
+Info Packages marked with ⌃ and ⌅ have new versions available, but those wi
+th ⌅ are restricted by compatibility constraints from upgrading. To see why
+ use `status --outdated -m`
 ```