Julia Dependency Update (#262)

Automated changes by [create-pull-request](https://github.com/peter-evans/create-pull-request) GitHub action
ntumitolab · Oct 9, 2023 · 608230e · 608230e
1 parent ba9f98c
commit 608230e
Showing 1 changed file with 68 additions and 41 deletions.
diff --git a/Manifest.toml b/Manifest.toml
@@ -11,9 +11,9 @@ version = "0.2.4"
 
 [[deps.AbstractAlgebra]]
 deps = ["GroupsCore", "InteractiveUtils", "LinearAlgebra", "MacroTools", "Preferences", "Random", "RandomExtensions", "SparseArrays", "Test"]
-git-tree-sha1 = "1db808640788803779048afdbe359a172e62927e"
+git-tree-sha1 = "c3c29bf6363b3ac3e421dc8b2ba8e33bdacbd245"
 uuid = "c3fe647b-3220-5bb0-a1ea-a7954cac585d"
-version = "0.32.4"
+version = "0.32.5"
 
 [[deps.AbstractTrees]]
 git-tree-sha1 = "faa260e4cb5aba097a73fab382dd4b5819d8ec8c"
@@ -98,9 +98,9 @@ version = "0.1.5"
 
 [[deps.BoundaryValueDiffEq]]
 deps = ["ADTypes", "Adapt", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "ForwardDiff", "LinearAlgebra", "NonlinearSolve", "PreallocationTools", "RecursiveArrayTools", "Reexport", "SciMLBase", "Setfield", "SparseArrays", "SparseDiffTools", "TruncatedStacktraces", "UnPack"]
-git-tree-sha1 = "147b2c17f3f42ce3de29f43283d301892969695d"
+git-tree-sha1 = "de4f02f54b760a6a68b7fb57185275266c09beca"
 uuid = "764a87c0-6b3e-53db-9096-fe964310641d"
-version = "5.0.0"
+version = "5.1.0"
 
     [deps.BoundaryValueDiffEq.extensions]
     BoundaryValueDiffEqODEInterfaceExt = "ODEInterface"
@@ -138,10 +138,10 @@ uuid = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b"
 version = "0.10.11"
 
 [[deps.Cairo_jll]]
-deps = ["Artifacts", "Bzip2_jll", "CompilerSupportLibraries_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "JLLWrappers", "LZO_jll", "Libdl", "Pixman_jll", "Pkg", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Zlib_jll", "libpng_jll"]
-git-tree-sha1 = "4b859a208b2397a7a623a03449e4636bdb17bcf2"
+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 = "d3cc53959197e659a85f4fac191045245db8c39b"
 uuid = "83423d85-b0ee-5818-9007-b63ccbeb887a"
-version = "1.16.1+1"
+version = "1.18.0+0"
 
 [[deps.Calculus]]
 deps = ["LinearAlgebra"]
@@ -151,9 +151,15 @@ version = "0.5.1"
 
 [[deps.Catalyst]]
 deps = ["DataStructures", "DiffEqBase", "DocStringExtensions", "Graphs", "JumpProcesses", "LaTeXStrings", "Latexify", "LinearAlgebra", "MacroTools", "ModelingToolkit", "Parameters", "Reexport", "Requires", "SparseArrays", "SymbolicUtils", "Symbolics", "Unitful"]
-git-tree-sha1 = "e38c5c3c9522f31e3089ffb4f022edda251641c7"
+git-tree-sha1 = "099b15b77b6ec346509078bf1f863d287b830822"
 uuid = "479239e8-5488-4da2-87a7-35f2df7eef83"
-version = "13.4.1"
+version = "13.5.0"
+
+    [deps.Catalyst.extensions]
+    CatalystHomotopyContinuationExtension = "HomotopyContinuation"
+
+    [deps.Catalyst.weakdeps]
+    HomotopyContinuation = "f213a82b-91d6-5c5d-acf7-10f1c761b327"
 
 [[deps.ChainRulesCore]]
 deps = ["Compat", "LinearAlgebra", "SparseArrays"]
@@ -309,9 +315,9 @@ uuid = "ade2ca70-3891-5945-98fb-dc099432e06a"
 
 [[deps.DelayDiffEq]]
 deps = ["ArrayInterface", "DataStructures", "DiffEqBase", "LinearAlgebra", "Logging", "OrdinaryDiffEq", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SimpleNonlinearSolve", "SimpleUnPack"]
-git-tree-sha1 = "92f9967824241fe37d02e6dd76afb73b562a3fcf"
+git-tree-sha1 = "df712c77bb43b37ea966feb72cb2e92d51a3face"
 uuid = "bcd4f6db-9728-5f36-b5f7-82caef46ccdb"
-version = "5.43.0"
+version = "5.43.1"
 
 [[deps.DelimitedFiles]]
 deps = ["Mmap"]
@@ -321,9 +327,9 @@ version = "1.9.1"
 
 [[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 = "22ab786efaef7b9ccb66a272d7cc2471bea76ba9"
+git-tree-sha1 = "0b233c3993219cd59be6d7c93ab761f6c10b8170"
 uuid = "2b5f629d-d688-5b77-993f-72d75c75574e"
-version = "6.130.4"
+version = "6.132.2"
 
     [deps.DiffEqBase.extensions]
     DiffEqBaseDistributionsExt = "Distributions"
@@ -388,12 +394,13 @@ version = "7.11.0"
 
 [[deps.Distances]]
 deps = ["LinearAlgebra", "Statistics", "StatsAPI"]
-git-tree-sha1 = "b6def76ffad15143924a2199f72a5cd883a2e8a9"
+git-tree-sha1 = "5225c965635d8c21168e32a12954675e7bea1151"
 uuid = "b4f34e82-e78d-54a5-968a-f98e89d6e8f7"
-version = "0.10.9"
-weakdeps = ["SparseArrays"]
+version = "0.10.10"
+weakdeps = ["ChainRulesCore", "SparseArrays"]
 
     [deps.Distances.extensions]
+    DistancesChainRulesCoreExt = "ChainRulesCore"
     DistancesSparseArraysExt = "SparseArrays"
 
 [[deps.Distributed]]
@@ -715,9 +722,9 @@ uuid = "615f187c-cbe4-4ef1-ba3b-2fcf58d6d173"
 version = "0.1.1"
 
 [[deps.Inflate]]
-git-tree-sha1 = "5cd07aab533df5170988219191dfad0519391428"
+git-tree-sha1 = "ea8031dea4aff6bd41f1df8f2fdfb25b33626381"
 uuid = "d25df0c9-e2be-5dd7-82c8-3ad0b3e990b9"
-version = "0.1.3"
+version = "0.1.4"
 
 [[deps.InlineStrings]]
 deps = ["Parsers"]
@@ -730,6 +737,12 @@ git-tree-sha1 = "b8ffb903da9f7b8cf695a8bead8e01814aa24b30"
 uuid = "18e54dd8-cb9d-406c-a71d-865a43cbb235"
 version = "0.1.2"
 
+[[deps.IntelOpenMP_jll]]
+deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
+git-tree-sha1 = "ad37c091f7d7daf900963171600d7c1c5c3ede32"
+uuid = "1d5cc7b8-4909-519e-a0f8-d0f5ad9712d0"
+version = "2023.2.0+0"
+
 [[deps.InteractiveUtils]]
 deps = ["Markdown"]
 uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240"
@@ -883,6 +896,10 @@ git-tree-sha1 = "1370f8202dac30758f3c345f9909b97f53d87d3f"
 uuid = "50d2b5c4-7a5e-59d5-8109-a42b560f39c0"
 version = "0.15.1"
 
+[[deps.LazyArtifacts]]
+deps = ["Artifacts", "Pkg"]
+uuid = "4af54fe1-eca0-43a8-85a7-787d91b784e3"
+
 [[deps.LevyArea]]
 deps = ["LinearAlgebra", "Random", "SpecialFunctions"]
 git-tree-sha1 = "56513a09b8e0ae6485f34401ea9e2f31357958ec"
@@ -970,10 +987,10 @@ deps = ["Libdl", "OpenBLAS_jll", "libblastrampoline_jll"]
 uuid = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
 
 [[deps.LinearSolve]]
-deps = ["ArrayInterface", "ConcreteStructs", "DocStringExtensions", "EnumX", "EnzymeCore", "FastLapackInterface", "GPUArraysCore", "InteractiveUtils", "KLU", "Krylov", "Libdl", "LinearAlgebra", "PrecompileTools", "Preferences", "RecursiveFactorization", "Reexport", "Requires", "SciMLBase", "SciMLOperators", "Setfield", "SparseArrays", "Sparspak", "SuiteSparse", "UnPack"]
-git-tree-sha1 = "ba01f7a97d3d8bd711b2c00a8a68c887d8a85c9d"
+deps = ["ArrayInterface", "ConcreteStructs", "DocStringExtensions", "EnumX", "EnzymeCore", "FastLapackInterface", "GPUArraysCore", "InteractiveUtils", "KLU", "Krylov", "Libdl", "LinearAlgebra", "MKL_jll", "PrecompileTools", "Preferences", "RecursiveFactorization", "Reexport", "Requires", "SciMLBase", "SciMLOperators", "Setfield", "SparseArrays", "Sparspak", "SuiteSparse", "UnPack"]
+git-tree-sha1 = "435ab14ca589757a0feae6e3e347bc37addda42d"
 uuid = "7ed4a6bd-45f5-4d41-b270-4a48e9bafcae"
-version = "2.8.1"
+version = "2.9.2"
 
     [deps.LinearSolve.extensions]
     LinearSolveBlockDiagonalsExt = "BlockDiagonals"
@@ -983,7 +1000,6 @@ version = "2.8.1"
     LinearSolveIterativeSolversExt = "IterativeSolvers"
     LinearSolveKernelAbstractionsExt = "KernelAbstractions"
     LinearSolveKrylovKitExt = "KrylovKit"
-    LinearSolveMKLExt = "MKL_jll"
     LinearSolveMetalExt = "Metal"
     LinearSolvePardisoExt = "Pardiso"
 
@@ -995,7 +1011,6 @@ version = "2.8.1"
     IterativeSolvers = "42fd0dbc-a981-5370-80f2-aaf504508153"
     KernelAbstractions = "63c18a36-062a-441e-b654-da1e3ab1ce7c"
     KrylovKit = "0b1a1467-8014-51b9-945f-bf0ae24f4b77"
-    MKL_jll = "856f044c-d86e-5d09-b602-aeab76dc8ba7"
     Metal = "dde4c033-4e86-420c-a63e-0dd931031962"
     Pardiso = "46dd5b70-b6fb-5a00-ae2d-e8fea33afaf2"
 
@@ -1035,6 +1050,12 @@ weakdeps = ["ChainRulesCore", "ForwardDiff", "SpecialFunctions"]
     ForwardDiffExt = ["ChainRulesCore", "ForwardDiff"]
     SpecialFunctionsExt = "SpecialFunctions"
 
+[[deps.MKL_jll]]
+deps = ["Artifacts", "IntelOpenMP_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "Pkg"]
+git-tree-sha1 = "eb006abbd7041c28e0d16260e50a24f8f9104913"
+uuid = "856f044c-d86e-5d09-b602-aeab76dc8ba7"
+version = "2023.2.0+0"
+
 [[deps.MLStyle]]
 git-tree-sha1 = "bc38dff0548128765760c79eb7388a4b37fae2c8"
 uuid = "d8e11817-5142-5d16-987a-aa16d5891078"
@@ -1082,9 +1103,9 @@ uuid = "a63ad114-7e13-5084-954f-fe012c677804"
 
 [[deps.ModelingToolkit]]
 deps = ["AbstractTrees", "ArrayInterface", "Combinatorics", "Compat", "ConstructionBase", "DataStructures", "DiffEqBase", "DiffEqCallbacks", "DiffRules", "Distributed", "Distributions", "DocStringExtensions", "DomainSets", "ForwardDiff", "FunctionWrappersWrappers", "Graphs", "IfElse", "InteractiveUtils", "JuliaFormatter", "JumpProcesses", "LabelledArrays", "Latexify", "Libdl", "LinearAlgebra", "MLStyle", "MacroTools", "NaNMath", "OrdinaryDiffEq", "PrecompileTools", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLBase", "Serialization", "Setfield", "SimpleNonlinearSolve", "SparseArrays", "SpecialFunctions", "StaticArrays", "SymbolicIndexingInterface", "SymbolicUtils", "Symbolics", "URIs", "UnPack", "Unitful"]
-git-tree-sha1 = "43751c01aefb8f22a7ce6ac6a8f8fa332f00bbc7"
+git-tree-sha1 = "ce79aaa72f7715d3fc4529fe831dc46a151d4496"
 uuid = "961ee093-0014-501f-94e3-6117800e7a78"
-version = "8.71.2"
+version = "8.72.0"
 
     [deps.ModelingToolkit.extensions]
     MTKDeepDiffsExt = "DeepDiffs"
@@ -1137,9 +1158,9 @@ version = "1.2.0"
 
 [[deps.NonlinearSolve]]
 deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "EnumX", "FiniteDiff", "ForwardDiff", "LineSearches", "LinearAlgebra", "LinearSolve", "PrecompileTools", "RecursiveArrayTools", "Reexport", "SciMLBase", "SimpleNonlinearSolve", "SparseArrays", "SparseDiffTools", "StaticArraysCore", "UnPack"]
-git-tree-sha1 = "7032be911404fe667e2a7ccd464ba5f2532797f2"
+git-tree-sha1 = "445a7ba86794e1f8ee9da3b3b7becf284e2625fd"
 uuid = "8913a72c-1f9b-4ce2-8d82-65094dcecaec"
-version = "2.0.1"
+version = "2.1.0"
 
 [[deps.OffsetArrays]]
 deps = ["Adapt"]
@@ -1183,9 +1204,9 @@ version = "0.5.5+0"
 
 [[deps.Optim]]
 deps = ["Compat", "FillArrays", "ForwardDiff", "LineSearches", "LinearAlgebra", "NLSolversBase", "NaNMath", "Parameters", "PositiveFactorizations", "Printf", "SparseArrays", "StatsBase"]
-git-tree-sha1 = "963b004d15216f8129f6c0f7d187efa136570be0"
+git-tree-sha1 = "01f85d9269b13fedc61e63cc72ee2213565f7a72"
 uuid = "429524aa-4258-5aef-a3af-852621145aeb"
-version = "1.7.7"
+version = "1.7.8"
 
 [[deps.Opus_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
@@ -1200,9 +1221,9 @@ version = "1.6.2"
 
 [[deps.OrdinaryDiffEq]]
 deps = ["ADTypes", "Adapt", "ArrayInterface", "DataStructures", "DiffEqBase", "DocStringExtensions", "ExponentialUtilities", "FastBroadcast", "FastClosures", "FiniteDiff", "ForwardDiff", "FunctionWrappersWrappers", "IfElse", "InteractiveUtils", "LineSearches", "LinearAlgebra", "LinearSolve", "Logging", "LoopVectorization", "MacroTools", "MuladdMacro", "NLsolve", "NonlinearSolve", "Polyester", "PreallocationTools", "PrecompileTools", "Preferences", "RecursiveArrayTools", "Reexport", "SciMLBase", "SciMLNLSolve", "SciMLOperators", "SimpleNonlinearSolve", "SimpleUnPack", "SparseArrays", "SparseDiffTools", "StaticArrayInterface", "StaticArrays", "TruncatedStacktraces"]
-git-tree-sha1 = "16d4feaf7e17ac63cb6bb742b0a4dfd50d1ef458"
+git-tree-sha1 = "def999a7447854f0e9ca9fdda235e04a65916b76"
 uuid = "1dea7af3-3e70-54e6-95c3-0bf5283fa5ed"
-version = "6.57.0"
+version = "6.58.0"
 
 [[deps.PCRE2_jll]]
 deps = ["Artifacts", "Libdl"]
@@ -1211,9 +1232,9 @@ version = "10.42.0+0"
 
 [[deps.PDMats]]
 deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse"]
-git-tree-sha1 = "528664265c9c36b3ecdb6d721d47aaab52ddf267"
+git-tree-sha1 = "fcf8fd477bd7f33cb8dbb1243653fb0d415c256c"
 uuid = "90014a1f-27ba-587c-ab20-58faa44d9150"
-version = "0.11.24"
+version = "0.11.25"
 
 [[deps.PackageExtensionCompat]]
 git-tree-sha1 = "fb28e33b8a95c4cee25ce296c817d89cc2e53518"
@@ -1442,9 +1463,9 @@ version = "1.2.2"
 
 [[deps.RelocatableFolders]]
 deps = ["SHA", "Scratch"]
-git-tree-sha1 = "90bc7a7c96410424509e4263e277e43250c05691"
+git-tree-sha1 = "ffdaf70d81cf6ff22c2b6e733c900c3321cab864"
 uuid = "05181044-ff0b-4ac5-8273-598c1e38db00"
-version = "1.0.0"
+version = "1.0.1"
 
 [[deps.Requires]]
 deps = ["UUIDs"]
@@ -1499,14 +1520,20 @@ version = "0.6.39"
 
 [[deps.SciMLBase]]
 deps = ["ADTypes", "ArrayInterface", "ChainRulesCore", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "FillArrays", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "PrecompileTools", "Preferences", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables", "TruncatedStacktraces", "ZygoteRules"]
-git-tree-sha1 = "e7c518184850701c91df0e898241c07e03c7f367"
+git-tree-sha1 = "317f77cb31f7a0275cdd045aa7b3526ebc15c817"
 uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462"
-version = "2.0.7"
+version = "2.4.0"
 
     [deps.SciMLBase.extensions]
-    ZygoteExt = "Zygote"
+    SciMLBasePyCallExt = "PyCall"
+    SciMLBasePythonCallExt = "PythonCall"
+    SciMLBaseRCallExt = "RCall"
+    SciMLBaseZygoteExt = "Zygote"
 
     [deps.SciMLBase.weakdeps]
+    PyCall = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0"
+    PythonCall = "6099a3de-0909-46bc-b1f4-468b9a2dfc0d"
+    RCall = "6f49c342-dc21-5d91-9882-a32aef131414"
     Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f"
 
 [[deps.SciMLNLSolve]]
@@ -1600,10 +1627,10 @@ deps = ["Libdl", "LinearAlgebra", "Random", "Serialization", "SuiteSparse_jll"]
 uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
 
 [[deps.SparseDiffTools]]
-deps = ["ADTypes", "Adapt", "ArrayInterface", "Compat", "DataStructures", "FiniteDiff", "ForwardDiff", "Graphs", "LinearAlgebra", "PackageExtensionCompat", "Reexport", "SciMLOperators", "Setfield", "SparseArrays", "StaticArrayInterface", "StaticArrays", "Tricks", "UnPack", "VertexSafeGraphs"]
-git-tree-sha1 = "42d131931906bf4f0af97a7113c8456d0a8aff9d"
+deps = ["ADTypes", "Adapt", "ArrayInterface", "Compat", "DataStructures", "FiniteDiff", "ForwardDiff", "Graphs", "LinearAlgebra", "PackageExtensionCompat", "Random", "Reexport", "SciMLOperators", "Setfield", "SparseArrays", "StaticArrayInterface", "StaticArrays", "Tricks", "UnPack", "VertexSafeGraphs"]
+git-tree-sha1 = "0a4538040f6eeae9016043104056dc6c13e1d8c1"
 uuid = "47a9eef4-7e08-11e9-0b38-333d64bd3804"
-version = "2.6.0"
+version = "2.7.0"
 
     [deps.SparseDiffTools.extensions]
     SparseDiffToolsEnzymeExt = "Enzyme"