build based on 790a655

SciML · Nov 5, 2023 · f1b72e8 · f1b72e8
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diff --git a/dev/.documenter-siteinfo.json b/dev/.documenter-siteinfo.json
@@ -1 +1 @@
-{"documenter":{"julia_version":"1.9.3","generation_timestamp":"2023-11-02T22:04:07","documenter_version":"1.1.2"}}
+{"documenter":{"julia_version":"1.9.3","generation_timestamp":"2023-11-05T11:42:41","documenter_version":"1.1.2"}}
diff --git a/dev/assets/Manifest.toml b/dev/assets/Manifest.toml
@@ -232,24 +232,25 @@ deps = ["Printf"]
 uuid = "ade2ca70-3891-5945-98fb-dc099432e06a"
 
 [[deps.DiffEqBase]]
-deps = ["ArrayInterface", "ChainRulesCore", "DataStructures", "DocStringExtensions", "EnumX", "EnzymeCore", "FastBroadcast", "ForwardDiff", "FunctionWrappers", "FunctionWrappersWrappers", "LinearAlgebra", "Logging", "Markdown", "MuladdMacro", "Parameters", "PreallocationTools", "PrecompileTools", "Printf", "RecursiveArrayTools", "Reexport", "Requires", "SciMLBase", "SciMLOperators", "Setfield", "SparseArrays", "Static", "StaticArraysCore", "Statistics", "Tricks", "TruncatedStacktraces", "ZygoteRules"]
-git-tree-sha1 = "c8bc8487a7987c13576f25959ac11b25d5da84e2"
+deps = ["ArrayInterface", "DataStructures", "DocStringExtensions", "EnumX", "EnzymeCore", "FastBroadcast", "ForwardDiff", "FunctionWrappers", "FunctionWrappersWrappers", "LinearAlgebra", "Logging", "Markdown", "MuladdMacro", "Parameters", "PreallocationTools", "PrecompileTools", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SciMLOperators", "Setfield", "SparseArrays", "Static", "StaticArraysCore", "Statistics", "Tricks", "TruncatedStacktraces"]
+git-tree-sha1 = "de4709e30bd5490435122c4b415b90a812c23fbf"
 uuid = "2b5f629d-d688-5b77-993f-72d75c75574e"
-version = "6.136.0"
+version = "6.138.1"
 
     [deps.DiffEqBase.extensions]
+    DiffEqBaseChainRulesCoreExt = "ChainRulesCore"
     DiffEqBaseDistributionsExt = "Distributions"
-    DiffEqBaseEnzymeExt = "Enzyme"
+    DiffEqBaseEnzymeExt = ["ChainRulesCore", "Enzyme"]
     DiffEqBaseGeneralizedGeneratedExt = "GeneralizedGenerated"
     DiffEqBaseMPIExt = "MPI"
     DiffEqBaseMeasurementsExt = "Measurements"
     DiffEqBaseMonteCarloMeasurementsExt = "MonteCarloMeasurements"
     DiffEqBaseReverseDiffExt = "ReverseDiff"
     DiffEqBaseTrackerExt = "Tracker"
     DiffEqBaseUnitfulExt = "Unitful"
-    DiffEqBaseZygoteExt = "Zygote"
 
     [deps.DiffEqBase.weakdeps]
+    ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"
     Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
     Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9"
     GeneralizedGenerated = "6b9d7cbe-bcb9-11e9-073f-15a7a543e2eb"
@@ -259,7 +260,6 @@ version = "6.136.0"
     ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267"
     Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c"
     Unitful = "1986cc42-f94f-5a68-af5c-568840ba703d"
-    Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f"
 
 [[deps.DiffEqCallbacks]]
 deps = ["DataStructures", "DiffEqBase", "ForwardDiff", "Functors", "LinearAlgebra", "Markdown", "NLsolve", "Parameters", "RecipesBase", "RecursiveArrayTools", "SciMLBase", "StaticArraysCore"]
@@ -299,18 +299,20 @@ deps = ["Random", "Serialization", "Sockets"]
 uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b"
 
 [[deps.Distributions]]
-deps = ["FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsAPI", "StatsBase", "StatsFuns", "Test"]
-git-tree-sha1 = "3d5873f811f582873bb9871fc9c451784d5dc8c7"
+deps = ["FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsAPI", "StatsBase", "StatsFuns"]
+git-tree-sha1 = "a6c00f894f24460379cb7136633cef54ac9f6f4a"
 uuid = "31c24e10-a181-5473-b8eb-7969acd0382f"
-version = "0.25.102"
+version = "0.25.103"
 
     [deps.Distributions.extensions]
     DistributionsChainRulesCoreExt = "ChainRulesCore"
     DistributionsDensityInterfaceExt = "DensityInterface"
+    DistributionsTestExt = "Test"
 
     [deps.Distributions.weakdeps]
     ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"
     DensityInterface = "b429d917-457f-4dbc-8f4c-0cc954292b1d"
+    Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
 
 [[deps.DocStringExtensions]]
 deps = ["LibGit2"]
@@ -862,19 +864,19 @@ version = "1.0.2"
 
 [[deps.Nemo]]
 deps = ["AbstractAlgebra", "Antic_jll", "Arb_jll", "Calcium_jll", "FLINT_jll", "Libdl", "LinearAlgebra", "Pkg", "Random", "RandomExtensions", "SHA"]
-git-tree-sha1 = "3d2d9fe3ada429bd2c8b11a4c5361e05a8b6fe36"
+git-tree-sha1 = "2e64573c921aea7689ffd4bade8a7906ef8cd507"
 uuid = "2edaba10-b0f1-5616-af89-8c11ac63239a"
-version = "0.37.2"
+version = "0.37.4"
 
 [[deps.NetworkOptions]]
 uuid = "ca575930-c2e3-43a9-ace4-1e988b2c1908"
 version = "1.2.0"
 
 [[deps.NonlinearSolve]]
 deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "EnumX", "FastBroadcast", "FiniteDiff", "ForwardDiff", "LineSearches", "LinearAlgebra", "LinearSolve", "PrecompileTools", "RecursiveArrayTools", "Reexport", "SciMLBase", "SimpleNonlinearSolve", "SparseArrays", "SparseDiffTools", "StaticArraysCore", "UnPack"]
-git-tree-sha1 = "613f5d5b911ab761cc7f41191c197ba3d9ca9d78"
+git-tree-sha1 = "a4de866eb82a5ad44fce67b4853c168fa4b32703"
 uuid = "8913a72c-1f9b-4ce2-8d82-65094dcecaec"
-version = "2.6.0"
+version = "2.6.1"
 
     [deps.NonlinearSolve.extensions]
     NonlinearSolveBandedMatricesExt = "BandedMatrices"
@@ -1135,19 +1137,21 @@ uuid = "476501e8-09a2-5ece-8869-fb82de89a1fa"
 version = "0.6.42"
 
 [[deps.SciMLBase]]
-deps = ["ADTypes", "ArrayInterface", "ChainRulesCore", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "FillArrays", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "PrecompileTools", "Preferences", "Printf", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables", "TruncatedStacktraces", "ZygoteRules"]
-git-tree-sha1 = "9e4c2902c2e8675c3b67eb24fd7f89defcbde9af"
+deps = ["ADTypes", "ArrayInterface", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "FillArrays", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "PrecompileTools", "Preferences", "Printf", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables", "TruncatedStacktraces"]
+git-tree-sha1 = "8d1bb6b4c0aa7c1bcd3bcd81e2b8c3b4f4b0733e"
 uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462"
-version = "2.6.0"
+version = "2.7.3"
 
     [deps.SciMLBase.extensions]
+    SciMLBaseChainRulesCoreExt = "ChainRulesCore"
     SciMLBasePartialFunctionsExt = "PartialFunctions"
     SciMLBasePyCallExt = "PyCall"
     SciMLBasePythonCallExt = "PythonCall"
     SciMLBaseRCallExt = "RCall"
     SciMLBaseZygoteExt = "Zygote"
 
     [deps.SciMLBase.weakdeps]
+    ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"
     PartialFunctions = "570af359-4316-4cb7-8c74-252c00c2016b"
     PyCall = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0"
     PythonCall = "6099a3de-0909-46bc-b1f4-468b9a2dfc0d"
@@ -1481,12 +1485,6 @@ deps = ["Libdl"]
 uuid = "83775a58-1f1d-513f-b197-d71354ab007a"
 version = "1.2.13+0"
 
-[[deps.ZygoteRules]]
-deps = ["ChainRulesCore", "MacroTools"]
-git-tree-sha1 = "9d749cd449fb448aeca4feee9a2f4186dbb5d184"
-uuid = "700de1a5-db45-46bc-99cf-38207098b444"
-version = "0.2.4"
-
 [[deps.libblastrampoline_jll]]
 deps = ["Artifacts", "Libdl"]
 uuid = "8e850b90-86db-534c-a0d3-1478176c7d93"

diff --git a/dev/export/export/index.html b/dev/export/export/index.html
diff --git a/dev/identifiability/identifiability/index.html b/dev/identifiability/identifiability/index.html
diff --git a/dev/index.html b/dev/index.html
@@ -23,11 +23,11 @@
   Official https://julialang.org/ release
 Platform Info:
   OS: Linux (x86_64-linux-gnu)
-  CPU: 2 × Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz
+  CPU: 4 × AMD EPYC 7763 64-Core Processor
   WORD_SIZE: 64
   LIBM: libopenlibm
-  LLVM: libLLVM-14.0.6 (ORCJIT, skylake-avx512)
-  Threads: 1 on 2 virtual cores</code></pre></details><details><summary>A more complete overview of all dependencies and their versions is also provided.</summary><pre class="documenter-example-output"><code class="nohighlight hljs ansi">Status `~/work/StructuralIdentifiability.jl/StructuralIdentifiability.jl/docs/Manifest.toml`
+  LLVM: libLLVM-14.0.6 (ORCJIT, znver3)
+  Threads: 1 on 4 virtual cores</code></pre></details><details><summary>A more complete overview of all dependencies and their versions is also provided.</summary><pre class="documenter-example-output"><code class="nohighlight hljs ansi">Status `~/work/StructuralIdentifiability.jl/StructuralIdentifiability.jl/docs/Manifest.toml`
   [47edcb42] ADTypes v0.2.4
   [a4c015fc] ANSIColoredPrinters v0.0.1
 ⌅ [c3fe647b] AbstractAlgebra v0.32.5
@@ -56,12 +56,12 @@
   [9a962f9c] DataAPI v1.15.0
   [864edb3b] DataStructures v0.18.15
   [e2d170a0] DataValueInterfaces v1.0.0
-  [2b5f629d] DiffEqBase v6.136.0
+  [2b5f629d] DiffEqBase v6.138.1
   [459566f4] DiffEqCallbacks v2.33.1
   [163ba53b] DiffResults v1.1.0
   [b552c78f] DiffRules v1.15.1
   [b4f34e82] Distances v0.10.10
-  [31c24e10] Distributions v0.25.102
+  [31c24e10] Distributions v0.25.103
   [ffbed154] DocStringExtensions v0.9.3
   [e30172f5] Documenter v1.1.2
 ⌅ [5b8099bc] DomainSets v0.6.7
@@ -127,8 +127,8 @@
   [d41bc354] NLSolversBase v7.8.3
   [2774e3e8] NLsolve v4.5.1
   [77ba4419] NaNMath v1.0.2
-  [2edaba10] Nemo v0.37.2
-  [8913a72c] NonlinearSolve v2.6.0
+  [2edaba10] Nemo v0.37.4
+  [8913a72c] NonlinearSolve v2.6.1
   [6fe1bfb0] OffsetArrays v1.12.10
   [bac558e1] OrderedCollections v1.6.2
   [1dea7af3] OrdinaryDiffEq v6.58.1
@@ -159,7 +159,7 @@
   [fdea26ae] SIMD v3.4.5
   [94e857df] SIMDTypes v0.1.0
   [476501e8] SLEEFPirates v0.6.42
-  [0bca4576] SciMLBase v2.6.0
+  [0bca4576] SciMLBase v2.7.3
   [e9a6253c] SciMLNLSolve v0.1.9
   [c0aeaf25] SciMLOperators v0.3.6
   [efcf1570] Setfield v1.1.1
@@ -198,7 +198,6 @@
   [a7c27f48] Unityper v0.1.5
   [3d5dd08c] VectorizationBase v0.21.64
   [19fa3120] VertexSafeGraphs v0.2.0
-  [700de1a5] ZygoteRules v0.2.4
   [e21ec000] Antic_jll v0.201.500+0
   [d9960996] Arb_jll v200.2300.0+0
   [fcfa6d1b] Calcium_jll v0.401.100+0
@@ -259,4 +258,4 @@
   [3f19e933] p7zip_jll v17.4.0+0
 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m`</code></pre></details>You can also download the 
 <a href="">manifest</a> file and the
-<a href="">project</a> file.</article><nav class="docs-footer"><a class="docs-footer-nextpage" href="tutorials/creating_ode/">Creating ODE System »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.1.2 on <span class="colophon-date" title="Thursday 2 November 2023 22:04">Thursday 2 November 2023</span>. Using Julia version 1.9.3.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+<a href="">project</a> file.</article><nav class="docs-footer"><a class="docs-footer-nextpage" href="tutorials/creating_ode/">Creating ODE System »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="auto">Automatic (OS)</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.1.2 on <span class="colophon-date" title="Sunday 5 November 2023 11:42">Sunday 5 November 2023</span>. Using Julia version 1.9.3.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
Original file line number	Diff line number	Diff line change
		@@ -1 +1 @@
		{"documenter":{"julia_version":"1.9.3","generation_timestamp":"2023-11-02T22:04:07","documenter_version":"1.1.2"}}
		{"documenter":{"julia_version":"1.9.3","generation_timestamp":"2023-11-05T11:42:41","documenter_version":"1.1.2"}}