Julia Dependency Update (#362)

Automated changes by [create-pull-request](https://github.com/peter-evans/create-pull-request) GitHub action
ntumitolab · Oct 7, 2024 · 9764062 · 9764062
1 parent 9ab8b1a
commit 9764062
Showing 1 changed file with 69 additions and 29 deletions.
diff --git a/Manifest.toml b/Manifest.toml
@@ -201,9 +201,9 @@ version = "0.10.14"
 
 [[deps.Cairo_jll]]
 deps = ["Artifacts", "Bzip2_jll", "CompilerSupportLibraries_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "JLLWrappers", "LZO_jll", "Libdl", "Pixman_jll", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Zlib_jll", "libpng_jll"]
-git-tree-sha1 = "a2f1c8c668c8e3cb4cca4e57a8efdb09067bb3fd"
+git-tree-sha1 = "009060c9a6168704143100f36ab08f06c2af4642"
 uuid = "83423d85-b0ee-5818-9007-b63ccbeb887a"
-version = "1.18.0+2"
+version = "1.18.2+1"
 
 [[deps.Catalyst]]
 deps = ["Combinatorics", "DataStructures", "DiffEqBase", "DocStringExtensions", "DynamicPolynomials", "DynamicQuantities", "Graphs", "JumpProcesses", "LaTeXStrings", "Latexify", "LinearAlgebra", "MacroTools", "ModelingToolkit", "Parameters", "Reexport", "Requires", "RuntimeGeneratedFunctions", "SciMLBase", "Setfield", "SparseArrays", "SymbolicUtils", "Symbolics", "Unitful"]
@@ -281,10 +281,10 @@ uuid = "861a8166-3701-5b0c-9a16-15d98fcdc6aa"
 version = "1.0.2"
 
 [[deps.CommonMark]]
-deps = ["Crayons", "JSON", "PrecompileTools", "URIs"]
-git-tree-sha1 = "532c4185d3c9037c0237546d817858b23cf9e071"
+deps = ["Crayons", "PrecompileTools"]
+git-tree-sha1 = "3faae67b8899797592335832fccf4b3c80bb04fa"
 uuid = "a80b9123-70ca-4bc0-993e-6e3bcb318db6"
-version = "0.8.12"
+version = "0.8.15"
 
 [[deps.CommonSolve]]
 git-tree-sha1 = "0eee5eb66b1cf62cd6ad1b460238e60e4b09400c"
@@ -486,9 +486,9 @@ version = "7.14.0"
 
 [[deps.DifferentiationInterface]]
 deps = ["ADTypes", "Compat", "LinearAlgebra", "PackageExtensionCompat"]
-git-tree-sha1 = "50a19de1b366cbdcf2849dc5335bbd66e1db0dae"
+git-tree-sha1 = "624e283ddac6d608742e857b0487238f11940f57"
 uuid = "a0c0ee7d-e4b9-4e03-894e-1c5f64a51d63"
-version = "0.6.1"
+version = "0.6.6"
 
     [deps.DifferentiationInterface.extensions]
     DifferentiationInterfaceChainRulesCoreExt = "ChainRulesCore"
@@ -676,9 +676,9 @@ version = "4.4.4+1"
 
 [[deps.FastAlmostBandedMatrices]]
 deps = ["ArrayInterface", "ArrayLayouts", "BandedMatrices", "ConcreteStructs", "LazyArrays", "LinearAlgebra", "MatrixFactorizations", "PrecompileTools", "Reexport"]
-git-tree-sha1 = "a92b5820ea38da3b50b626cc55eba2b074bb0366"
+git-tree-sha1 = "3f03d94c71126b6cfe20d3cbcc41c5cd27e1c419"
 uuid = "9d29842c-ecb8-4973-b1e9-a27b1157504e"
-version = "0.1.3"
+version = "0.1.4"
 
 [[deps.FastBroadcast]]
 deps = ["ArrayInterface", "LinearAlgebra", "Polyester", "Static", "StaticArrayInterface", "StrideArraysCore"]
@@ -729,19 +729,21 @@ uuid = "64ca27bc-2ba2-4a57-88aa-44e436879224"
 version = "1.4.1"
 
 [[deps.FiniteDiff]]
-deps = ["ArrayInterface", "LinearAlgebra", "Setfield", "SparseArrays"]
-git-tree-sha1 = "f9219347ebf700e77ca1d48ef84e4a82a6701882"
+deps = ["ArrayInterface", "LinearAlgebra", "Setfield"]
+git-tree-sha1 = "890137ae2da0bfec798acc13d351f41e171af8e4"
 uuid = "6a86dc24-6348-571c-b903-95158fe2bd41"
-version = "2.24.0"
+version = "2.25.0"
 
     [deps.FiniteDiff.extensions]
     FiniteDiffBandedMatricesExt = "BandedMatrices"
     FiniteDiffBlockBandedMatricesExt = "BlockBandedMatrices"
+    FiniteDiffSparseArraysExt = "SparseArrays"
     FiniteDiffStaticArraysExt = "StaticArrays"
 
     [deps.FiniteDiff.weakdeps]
     BandedMatrices = "aae01518-5342-5314-be14-df237901396f"
     BlockBandedMatrices = "ffab5731-97b5-5995-9138-79e8c1846df0"
+    SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
     StaticArrays = "90137ffa-7385-5640-81b9-e52037218182"
 
 [[deps.FixedPointNumbers]]
@@ -842,9 +844,9 @@ version = "0.21.0+0"
 
 [[deps.Glib_jll]]
 deps = ["Artifacts", "Gettext_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Libiconv_jll", "Libmount_jll", "PCRE2_jll", "Zlib_jll"]
-git-tree-sha1 = "7c82e6a6cd34e9d935e9aa4051b66c6ff3af59ba"
+git-tree-sha1 = "674ff0db93fffcd11a3573986e550d66cd4fd71f"
 uuid = "7746bdde-850d-59dc-9ae8-88ece973131d"
-version = "2.80.2+0"
+version = "2.80.5+0"
 
 [[deps.Glob]]
 git-tree-sha1 = "97285bbd5230dd766e9ef6749b80fc617126d496"
@@ -1184,6 +1186,16 @@ git-tree-sha1 = "5ee6203157c120d79034c748a2acba45b82b8807"
 uuid = "38a345b3-de98-5d2b-a5d3-14cd9215e700"
 version = "2.40.1+0"
 
+[[deps.LineSearch]]
+deps = ["ADTypes", "CommonSolve", "ConcreteStructs", "FastClosures", "LinearAlgebra", "MaybeInplace", "SciMLBase", "SciMLJacobianOperators", "StaticArraysCore"]
+git-tree-sha1 = "dc82b3c3640a4362f09e4d7594b4387a820857e4"
+uuid = "87fe0de2-c867-4266-b59a-2f0a94fc965b"
+version = "0.1.3"
+weakdeps = ["LineSearches"]
+
+    [deps.LineSearch.extensions]
+    LineSearchLineSearchesExt = "LineSearches"
+
 [[deps.LineSearches]]
 deps = ["LinearAlgebra", "NLSolversBase", "NaNMath", "Parameters", "Printf"]
 git-tree-sha1 = "e4c3be53733db1051cc15ecf573b1042b3a712a1"
@@ -1339,9 +1351,9 @@ uuid = "a63ad114-7e13-5084-954f-fe012c677804"
 
 [[deps.ModelingToolkit]]
 deps = ["AbstractTrees", "ArrayInterface", "BlockArrays", "Combinatorics", "Compat", "ConstructionBase", "DataStructures", "DiffEqBase", "DiffEqCallbacks", "DiffEqNoiseProcess", "DiffRules", "Distributed", "Distributions", "DocStringExtensions", "DomainSets", "DynamicQuantities", "ExprTools", "Expronicon", "FindFirstFunctions", "ForwardDiff", "FunctionWrappers", "FunctionWrappersWrappers", "Graphs", "InteractiveUtils", "JuliaFormatter", "JumpProcesses", "Latexify", "Libdl", "LinearAlgebra", "MLStyle", "NaNMath", "NonlinearSolve", "OrderedCollections", "PrecompileTools", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLBase", "SciMLStructures", "Serialization", "Setfield", "SimpleNonlinearSolve", "SparseArrays", "SpecialFunctions", "StaticArrays", "SymbolicIndexingInterface", "SymbolicUtils", "Symbolics", "URIs", "UnPack", "Unitful"]
-git-tree-sha1 = "00140c3b93fbbbd317a71a65c578306d0d72b1be"
+git-tree-sha1 = "1b6e4c2e318c8a28a62f0a5e90b5a3735ee5d8e8"
 uuid = "961ee093-0014-501f-94e3-6117800e7a78"
-version = "9.41.0"
+version = "9.42.0"
 
     [deps.ModelingToolkit.extensions]
     MTKBifurcationKitExt = "BifurcationKit"
@@ -1399,10 +1411,10 @@ uuid = "ca575930-c2e3-43a9-ace4-1e988b2c1908"
 version = "1.2.0"
 
 [[deps.NonlinearSolve]]
-deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "FastBroadcast", "FastClosures", "FiniteDiff", "ForwardDiff", "LazyArrays", "LineSearches", "LinearAlgebra", "LinearSolve", "MaybeInplace", "PrecompileTools", "Preferences", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SimpleNonlinearSolve", "SparseArrays", "SparseDiffTools", "StaticArraysCore", "SymbolicIndexingInterface", "TimerOutputs"]
-git-tree-sha1 = "bcd8812e751326ff1d4b2dd50764b93df51f143b"
+deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "DifferentiationInterface", "FastBroadcast", "FastClosures", "FiniteDiff", "ForwardDiff", "LazyArrays", "LineSearch", "LineSearches", "LinearAlgebra", "LinearSolve", "MaybeInplace", "PrecompileTools", "Preferences", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SciMLJacobianOperators", "SciMLOperators", "Setfield", "SimpleNonlinearSolve", "SparseArrays", "SparseConnectivityTracer", "SparseMatrixColorings", "StaticArraysCore", "SymbolicIndexingInterface", "TimerOutputs"]
+git-tree-sha1 = "4d8944f32db2b07a2bdf8477e878bcb9c9ea2308"
 uuid = "8913a72c-1f9b-4ce2-8d82-65094dcecaec"
-version = "3.14.0"
+version = "3.15.1"
 
     [deps.NonlinearSolve.extensions]
     NonlinearSolveBandedMatricesExt = "BandedMatrices"
@@ -1414,8 +1426,6 @@ version = "3.14.0"
     NonlinearSolveNLsolveExt = "NLsolve"
     NonlinearSolveSIAMFANLEquationsExt = "SIAMFANLEquations"
     NonlinearSolveSpeedMappingExt = "SpeedMapping"
-    NonlinearSolveSymbolicsExt = "Symbolics"
-    NonlinearSolveZygoteExt = "Zygote"
 
     [deps.NonlinearSolve.weakdeps]
     BandedMatrices = "aae01518-5342-5314-be14-df237901396f"
@@ -1427,8 +1437,6 @@ version = "3.14.0"
     NLsolve = "2774e3e8-f4cf-5e23-947b-6d7e65073b56"
     SIAMFANLEquations = "084e46ad-d928-497d-ad5e-07fa361a48c4"
     SpeedMapping = "f1835b91-879b-4a3f-a438-e4baacf14412"
-    Symbolics = "0c5d862f-8b57-4792-8d23-62f2024744c7"
-    Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f"
 
 [[deps.OffsetArrays]]
 git-tree-sha1 = "1a27764e945a152f7ca7efa04de513d473e9542e"
@@ -2012,9 +2020,9 @@ version = "0.6.43"
 
 [[deps.SciMLBase]]
 deps = ["ADTypes", "Accessors", "ArrayInterface", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "Expronicon", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "PrecompileTools", "Preferences", "Printf", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "SciMLStructures", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables"]
-git-tree-sha1 = "ce6fb9b0d756446d902e4495f2447fa2ebfbb1f4"
+git-tree-sha1 = "885904799812ed88a607c03b38e9c3a4a5b08853"
 uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462"
-version = "2.54.2"
+version = "2.55.0"
 
     [deps.SciMLBase.extensions]
     SciMLBaseChainRulesCoreExt = "ChainRulesCore"
@@ -2035,6 +2043,12 @@ version = "2.54.2"
     RCall = "6f49c342-dc21-5d91-9882-a32aef131414"
     Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f"
 
+[[deps.SciMLJacobianOperators]]
+deps = ["ADTypes", "ConcreteStructs", "ConstructionBase", "DifferentiationInterface", "FastClosures", "LinearAlgebra", "SciMLBase", "SciMLOperators"]
+git-tree-sha1 = "991d2a8900e687e2c693d587daa739c8fda01366"
+uuid = "19f34311-ddf3-4b8b-af20-060888a46c0e"
+version = "0.1.0"
+
 [[deps.SciMLOperators]]
 deps = ["Accessors", "ArrayInterface", "DocStringExtensions", "LinearAlgebra", "MacroTools"]
 git-tree-sha1 = "e39c5f217f9aca640c8e27ab21acf557a3967db5"
@@ -2131,6 +2145,26 @@ deps = ["Libdl", "LinearAlgebra", "Random", "Serialization", "SuiteSparse_jll"]
 uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
 version = "1.10.0"
 
+[[deps.SparseConnectivityTracer]]
+deps = ["ADTypes", "DocStringExtensions", "FillArrays", "LinearAlgebra", "Random", "Requires", "SparseArrays"]
+git-tree-sha1 = "e5efbf152d3e14a513f19a9119b810340b7ac86b"
+uuid = "9f842d2f-2579-4b1d-911e-f412cf18a3f5"
+version = "0.6.6"
+
+    [deps.SparseConnectivityTracer.extensions]
+    SparseConnectivityTracerDataInterpolationsExt = "DataInterpolations"
+    SparseConnectivityTracerLogExpFunctionsExt = "LogExpFunctions"
+    SparseConnectivityTracerNNlibExt = "NNlib"
+    SparseConnectivityTracerNaNMathExt = "NaNMath"
+    SparseConnectivityTracerSpecialFunctionsExt = "SpecialFunctions"
+
+    [deps.SparseConnectivityTracer.weakdeps]
+    DataInterpolations = "82cc6244-b520-54b8-b5a6-8a565e85f1d0"
+    LogExpFunctions = "2ab3a3ac-af41-5b50-aa03-7779005ae688"
+    NNlib = "872c559c-99b0-510c-b3b7-b6c96a88d5cd"
+    NaNMath = "77ba4419-2d1f-58cd-9bb1-8ffee604a2e3"
+    SpecialFunctions = "276daf66-3868-5448-9aa4-cd146d93841b"
+
 [[deps.SparseDiffTools]]
 deps = ["ADTypes", "Adapt", "ArrayInterface", "Compat", "DataStructures", "FiniteDiff", "ForwardDiff", "Graphs", "LinearAlgebra", "PackageExtensionCompat", "Random", "Reexport", "SciMLOperators", "Setfield", "SparseArrays", "StaticArrayInterface", "StaticArrays", "Tricks", "UnPack", "VertexSafeGraphs"]
 git-tree-sha1 = "7db12cef226aaa8ca730040c9c35e32b86a69b83"
@@ -2151,6 +2185,12 @@ version = "2.22.0"
     Symbolics = "0c5d862f-8b57-4792-8d23-62f2024744c7"
     Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f"
 
+[[deps.SparseMatrixColorings]]
+deps = ["ADTypes", "Compat", "DataStructures", "DocStringExtensions", "LinearAlgebra", "Random", "SparseArrays"]
+git-tree-sha1 = "ad17e2069015839e58a1f9275608b405fae1f28e"
+uuid = "0a514795-09f3-496d-8182-132a7b665d35"
+version = "0.4.6"
+
 [[deps.Sparspak]]
 deps = ["Libdl", "LinearAlgebra", "Logging", "OffsetArrays", "Printf", "SparseArrays", "Test"]
 git-tree-sha1 = "342cf4b449c299d8d1ceaf00b7a49f4fbc7940e7"
@@ -2230,9 +2270,9 @@ weakdeps = ["ChainRulesCore", "InverseFunctions"]
 
 [[deps.SteadyStateDiffEq]]
 deps = ["ConcreteStructs", "DiffEqBase", "DiffEqCallbacks", "LinearAlgebra", "Reexport", "SciMLBase"]
-git-tree-sha1 = "9cdb2a0166b9e715abaaf5307091b49d296bfe12"
+git-tree-sha1 = "920acf6ae36c86f23969fea1d317e040dbfccf53"
 uuid = "9672c7b4-1e72-59bd-8a11-6ac3964bc41f"
-version = "2.4.0"
+version = "2.4.1"
 
 [[deps.StochasticDiffEq]]
 deps = ["Adapt", "ArrayInterface", "DataStructures", "DiffEqBase", "DiffEqNoiseProcess", "DocStringExtensions", "FiniteDiff", "ForwardDiff", "JumpProcesses", "LevyArea", "LinearAlgebra", "Logging", "MuladdMacro", "NLsolve", "OrdinaryDiffEq", "Random", "RandomNumbers", "RecursiveArrayTools", "Reexport", "SciMLBase", "SciMLOperators", "SparseArrays", "SparseDiffTools", "StaticArrays", "UnPack"]
@@ -2381,9 +2421,9 @@ uuid = "0796e94c-ce3b-5d07-9a54-7f471281c624"
 version = "0.5.29"
 
 [[deps.TranscodingStreams]]
-git-tree-sha1 = "e84b3a11b9bece70d14cce63406bbc79ed3464d2"
+git-tree-sha1 = "0c45878dcfdcfa8480052b6ab162cdd138781742"
 uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa"
-version = "0.11.2"
+version = "0.11.3"
 
 [[deps.TriangularSolve]]
 deps = ["CloseOpenIntervals", "IfElse", "LayoutPointers", "LinearAlgebra", "LoopVectorization", "Polyester", "Static", "VectorizationBase"]