From a634528bac9ae990e8544ba46cd66c06e370ef12 Mon Sep 17 00:00:00 2001 From: Marc Berliner <34451391+MarcBerliner@users.noreply.github.com> Date: Mon, 22 May 2023 15:53:28 -0400 Subject: [PATCH] Bumped compat --- Manifest.toml | 237 ++++++++++++++++++++++++++----------------------- Project.toml | 5 +- src/PETLION.jl | 2 +- 3 files changed, 127 insertions(+), 117 deletions(-) diff --git a/Manifest.toml b/Manifest.toml index 9fce37e..8d419fe 100644 --- a/Manifest.toml +++ b/Manifest.toml @@ -2,13 +2,18 @@ julia_version = "1.8.2" manifest_format = "2.0" -project_hash = "9c31eca74c6567b90d13d96c69bf98307653f68b" +project_hash = "12e72988cd1ef64d7f07972534c738fd459b3cbb" + +[[deps.ADTypes]] +git-tree-sha1 = "dcfdf328328f2645531c4ddebf841228aef74130" +uuid = "47edcb42-4c32-4615-8424-f2b9edc5f35b" +version = "0.1.3" [[deps.AbstractAlgebra]] -deps = ["GroupsCore", "InteractiveUtils", "LinearAlgebra", "MacroTools", "Markdown", "Random", "RandomExtensions", "SparseArrays", "Test"] -git-tree-sha1 = "29e65c331f97db9189ef00a4c7aed8127c2fd2d4" +deps = ["GroupsCore", "InteractiveUtils", "LinearAlgebra", "MacroTools", "Random", "RandomExtensions", "SparseArrays", "Test"] +git-tree-sha1 = "3ee5c58774f4487a5bf2bb05e39d91ff5022b4cc" uuid = "c3fe647b-3220-5bb0-a1ea-a7954cac585d" -version = "0.27.10" +version = "0.29.4" [[deps.AbstractTrees]] git-tree-sha1 = "faa260e4cb5aba097a73fab382dd4b5819d8ec8c" @@ -17,9 +22,9 @@ version = "0.4.4" [[deps.Adapt]] deps = ["LinearAlgebra", "Requires"] -git-tree-sha1 = "cc37d689f599e8df4f464b2fa3870ff7db7492ef" +git-tree-sha1 = "76289dc51920fdc6e0013c872ba9551d54961c24" uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e" -version = "3.6.1" +version = "3.6.2" [[deps.ArgTools]] uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f" @@ -32,18 +37,18 @@ uuid = "ec485272-7323-5ecc-a04f-4719b315124d" version = "0.2.0" [[deps.ArrayInterface]] -deps = ["Adapt", "LinearAlgebra", "Requires", "SnoopPrecompile", "SparseArrays", "SuiteSparse"] -git-tree-sha1 = "4d9946e51e24f5e509779e3e2c06281a733914c2" +deps = ["Adapt", "LinearAlgebra", "Requires", "SparseArrays", "SuiteSparse"] +git-tree-sha1 = "917286faa2abb288796e75b88ca67edc016f3219" uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9" -version = "7.1.0" +version = "7.4.5" [[deps.Artifacts]] uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33" [[deps.BSON]] -git-tree-sha1 = "86e9781ac28f4e80e9b98f7f96eae21891332ac2" +git-tree-sha1 = "2208958832d6e1b59e49f53697483a84ca8d664e" uuid = "fbb218c0-5317-5bc6-957e-2ee96dd4b1f0" -version = "0.3.6" +version = "0.3.7" [[deps.Base64]] uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f" @@ -78,15 +83,15 @@ version = "0.5.1" [[deps.ChainRulesCore]] deps = ["Compat", "LinearAlgebra", "SparseArrays"] -git-tree-sha1 = "c6d890a52d2c4d55d326439580c3b8d0875a77d9" +git-tree-sha1 = "e30f2f4e20f7f186dc36529910beaedc60cfa644" uuid = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" -version = "1.15.7" +version = "1.16.0" [[deps.ChangesOfVariables]] -deps = ["ChainRulesCore", "LinearAlgebra", "Test"] -git-tree-sha1 = "485193efd2176b88e6622a39a246f8c5b600e74e" +deps = ["LinearAlgebra", "Test"] +git-tree-sha1 = "f84967c4497e0e1955f9a582c232b02847c5f589" uuid = "9e997f8a-9a97-42d5-a9f1-ce6bfc15e2c0" -version = "0.1.6" +version = "0.1.7" [[deps.CloseOpenIntervals]] deps = ["Static", "StaticArrayInterface"] @@ -112,9 +117,9 @@ version = "0.3.0" [[deps.Compat]] deps = ["Dates", "LinearAlgebra", "UUIDs"] -git-tree-sha1 = "61fdd77467a5c3ad071ef8277ac6bd6af7dd4c04" +git-tree-sha1 = "7a60c856b9fa189eb34f5f8a6f6b5529b7942957" uuid = "34da2185-b29b-5c13-b0c7-acf172513d20" -version = "4.6.0" +version = "4.6.1" [[deps.CompilerSupportLibraries_jll]] deps = ["Artifacts", "Libdl"] @@ -128,9 +133,9 @@ version = "0.1.3" [[deps.ConstructionBase]] deps = ["LinearAlgebra"] -git-tree-sha1 = "89a9db8d28102b094992472d333674bd1a83ce2a" +git-tree-sha1 = "738fec4d684a9a6ee9598a8bfee305b26831f28c" uuid = "187b0558-2788-49d3-abe0-74a17ed4e7c9" -version = "1.5.1" +version = "1.5.2" [[deps.CpuId]] deps = ["Markdown"] @@ -139,9 +144,9 @@ uuid = "adafc99b-e345-5852-983c-f28acb93d879" version = "0.3.1" [[deps.DataAPI]] -git-tree-sha1 = "e8119c1a33d267e16108be441a287a6981ba1630" +git-tree-sha1 = "8da84edb865b0b5b0100c0666a9bc9a0b71c553c" uuid = "9a962f9c-6df0-11e9-0e5d-c546b8b5ee8a" -version = "1.14.0" +version = "1.15.0" [[deps.DataStructures]] deps = ["Compat", "InteractiveUtils", "OrderedCollections"] @@ -166,9 +171,9 @@ version = "0.4.0" [[deps.Dierckx]] deps = ["Dierckx_jll"] -git-tree-sha1 = "633c119fcfddf61fb4c75d77ce3ebab552a44723" +git-tree-sha1 = "d1ea9f433781bb6ff504f7d3cb70c4782c504a3a" uuid = "39dd38d3-220a-591b-8e3c-4c3a8c710a94" -version = "0.5.2" +version = "0.5.3" [[deps.Dierckx_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "Libdl", "Pkg"] @@ -177,10 +182,10 @@ uuid = "cd4c43a9-7502-52ba-aa6d-59fb2a88580b" version = "0.1.0+0" [[deps.DiffEqBase]] -deps = ["ArrayInterface", "ChainRulesCore", "DataStructures", "Distributions", "DocStringExtensions", "EnumX", "FastBroadcast", "ForwardDiff", "FunctionWrappers", "FunctionWrappersWrappers", "LinearAlgebra", "Logging", "Markdown", "MuladdMacro", "Parameters", "PreallocationTools", "Printf", "RecursiveArrayTools", "Reexport", "Requires", "SciMLBase", "Setfield", "SparseArrays", "Static", "StaticArraysCore", "Statistics", "Tricks", "TruncatedStacktraces", "ZygoteRules"] -git-tree-sha1 = "a057a5fe2a6a05f28ef1092d5974a0c2986be23c" +deps = ["ArrayInterface", "ChainRulesCore", "DataStructures", "Distributions", "DocStringExtensions", "EnumX", "FastBroadcast", "ForwardDiff", "FunctionWrappers", "FunctionWrappersWrappers", "LinearAlgebra", "Logging", "Markdown", "MuladdMacro", "Parameters", "PreallocationTools", "Printf", "RecursiveArrayTools", "Reexport", "Requires", "SciMLBase", "SciMLOperators", "Setfield", "SparseArrays", "Static", "StaticArraysCore", "Statistics", "Tricks", "TruncatedStacktraces", "ZygoteRules"] +git-tree-sha1 = "1c03e389a28be70cd9049f98ff0b84cf7539d959" uuid = "2b5f629d-d688-5b77-993f-72d75c75574e" -version = "6.121.1" +version = "6.125.0" [[deps.DiffResults]] deps = ["StaticArraysCore"] @@ -199,10 +204,10 @@ deps = ["Random", "Serialization", "Sockets"] uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b" [[deps.Distributions]] -deps = ["ChainRulesCore", "DensityInterface", "FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SparseArrays", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns", "Test"] -git-tree-sha1 = "d71264a7b9a95dca3b8fff4477d94a837346c545" +deps = ["ChainRulesCore", "DensityInterface", "FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SparseArrays", "SpecialFunctions", "Statistics", "StatsAPI", "StatsBase", "StatsFuns", "Test"] +git-tree-sha1 = "5eeb2bd01e5065090ad591a205d8cad432ae6cb6" uuid = "31c24e10-a181-5473-b8eb-7969acd0382f" -version = "0.25.84" +version = "0.25.93" [[deps.DocStringExtensions]] deps = ["LibGit2"] @@ -212,9 +217,9 @@ version = "0.9.3" [[deps.DomainSets]] deps = ["CompositeTypes", "IntervalSets", "LinearAlgebra", "Random", "StaticArrays", "Statistics"] -git-tree-sha1 = "988e2db482abeb69efc76ae8b6eba2e93805ee70" +git-tree-sha1 = "698124109da77b6914f64edd696be8dccf90229e" uuid = "5b8099bc-c8ec-5219-889f-1d9e522a28bf" -version = "0.5.15" +version = "0.6.6" [[deps.Downloads]] deps = ["ArgTools", "FileWatching", "LibCURL", "NetworkOptions"] @@ -239,9 +244,9 @@ uuid = "4e289a0a-7415-4d19-859d-a7e5c4648b56" version = "1.0.4" [[deps.ExprTools]] -git-tree-sha1 = "56559bbef6ca5ea0c0818fa5c90320398a6fbf8d" +git-tree-sha1 = "c1d06d129da9f55715c6c212866f5b1bddc5fa00" uuid = "e2ba6199-217a-4e67-a87a-7c52f15ade04" -version = "0.1.8" +version = "0.1.9" [[deps.FastBroadcast]] deps = ["ArrayInterface", "LinearAlgebra", "Polyester", "Static", "StaticArrayInterface", "StrideArraysCore"] @@ -254,15 +259,15 @@ uuid = "7b1f6079-737a-58dc-b8bc-7a2ca5c1b5ee" [[deps.FillArrays]] deps = ["LinearAlgebra", "Random", "SparseArrays", "Statistics"] -git-tree-sha1 = "d3ba08ab64bdfd27234d3f61956c966266757fe6" +git-tree-sha1 = "fa10570aee20250d446c9951b459c63529b1107c" uuid = "1a297f60-69ca-5386-bcde-b61e274b549b" -version = "0.13.7" +version = "1.0.2" [[deps.FiniteDiff]] deps = ["ArrayInterface", "LinearAlgebra", "Requires", "Setfield", "SparseArrays", "StaticArrays"] -git-tree-sha1 = "ed1b56934a2f7a65035976985da71b6a65b4f2cf" +git-tree-sha1 = "6604e18a0220650dbbea7854938768f15955dd8e" uuid = "6a86dc24-6348-571c-b903-95158fe2bd41" -version = "2.18.0" +version = "2.20.0" [[deps.Formatting]] deps = ["Printf"] @@ -293,9 +298,9 @@ uuid = "9fa8497b-333b-5362-9e8d-4d0656e87820" [[deps.GPUArraysCore]] deps = ["Adapt"] -git-tree-sha1 = "1cd7f0af1aa58abc02ea1d872953a97359cb87fa" +git-tree-sha1 = "2d6ca471a6c7b536127afccfa7564b5b39227fe0" uuid = "46192b85-c4d5-4398-a991-12ede77f4527" -version = "0.1.4" +version = "0.1.5" [[deps.GeneralizedGenerated]] deps = ["DataStructures", "JuliaVariables", "MLStyle", "Serialization"] @@ -310,10 +315,10 @@ uuid = "86223c79-3864-5bf0-83f7-82e725a168b6" version = "1.8.0" [[deps.Groebner]] -deps = ["AbstractAlgebra", "Combinatorics", "Logging", "MultivariatePolynomials", "Primes", "Random"] -git-tree-sha1 = "47f0f03eddecd7ad59c42b1dd46d5f42916aff63" +deps = ["AbstractAlgebra", "Combinatorics", "Logging", "MultivariatePolynomials", "Primes", "Random", "SnoopPrecompile"] +git-tree-sha1 = "b6c3e9e1eb8dcc6fd9bc68fe08dcc7ab22710de6" uuid = "0b43b601-686d-58a3-8a1c-6623616c7cd4" -version = "0.2.11" +version = "0.3.4" [[deps.GroupsCore]] deps = ["Markdown", "Random"] @@ -322,10 +327,10 @@ uuid = "d5909c97-4eac-4ecc-a3dc-fdd0858a4120" version = "0.4.0" [[deps.HypergeometricFunctions]] -deps = ["DualNumbers", "LinearAlgebra", "OpenLibm_jll", "SpecialFunctions", "Test"] -git-tree-sha1 = "709d864e3ed6e3545230601f94e11ebc65994641" +deps = ["DualNumbers", "LinearAlgebra", "OpenLibm_jll", "SpecialFunctions"] +git-tree-sha1 = "84204eae2dd237500835990bcade263e27674a93" uuid = "34004b35-14d8-5ef3-9330-4cdb6864b03a" -version = "0.3.11" +version = "0.3.16" [[deps.IfElse]] git-tree-sha1 = "debdd00ffef04665ccbb3e150747a77560e8fad1" @@ -348,15 +353,15 @@ uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240" [[deps.IntervalSets]] deps = ["Dates", "Random", "Statistics"] -git-tree-sha1 = "3f91cd3f56ea48d4d2a75c2a65455c5fc74fa347" +git-tree-sha1 = "16c0cc91853084cb5f58a78bd209513900206ce6" uuid = "8197267c-284f-5f27-9208-e0e47529a953" -version = "0.7.3" +version = "0.7.4" [[deps.InverseFunctions]] deps = ["Test"] -git-tree-sha1 = "49510dfcb407e572524ba94aeae2fced1f3feb0f" +git-tree-sha1 = "6667aadd1cdee2c6cd068128b3d226ebc4fb0c67" uuid = "3587e190-3f89-42d0-90ee-14403ec27112" -version = "0.1.8" +version = "0.1.9" [[deps.IrrationalConstants]] git-tree-sha1 = "630b497eafcc20001bba38a4651b327dcfc491d2" @@ -404,9 +409,9 @@ version = "0.4.6" [[deps.Latexify]] deps = ["Formatting", "InteractiveUtils", "LaTeXStrings", "MacroTools", "Markdown", "OrderedCollections", "Printf", "Requires"] -git-tree-sha1 = "2422f47b34d4b127720a18f86fa7b1aa2e141f29" +git-tree-sha1 = "099e356f267354f46ba65087981a77da23a279b7" uuid = "23fbe1c1-3f47-55db-b15f-69d7ec21a316" -version = "0.15.18" +version = "0.16.0" [[deps.LayoutPointers]] deps = ["ArrayInterface", "LinearAlgebra", "ManualMemory", "SIMDTypes", "Static", "StaticArrayInterface"] @@ -506,9 +511,9 @@ version = "0.4.7" [[deps.MutableArithmetics]] deps = ["LinearAlgebra", "SparseArrays", "Test"] -git-tree-sha1 = "3295d296288ab1a0a2528feb424b854418acff57" +git-tree-sha1 = "964cb1a7069723727025ae295408747a0b36a854" uuid = "d8a4904e-b15c-11e9-3269-09a3773c0cb0" -version = "1.2.3" +version = "1.3.0" [[deps.NaNMath]] deps = ["OpenLibm_jll"] @@ -543,15 +548,15 @@ uuid = "efe28fd5-8261-553b-a9e1-b2916fc3738e" version = "0.5.5+0" [[deps.OrderedCollections]] -git-tree-sha1 = "85f8e6578bf1f9ee0d11e7bb1b1456435479d47c" +git-tree-sha1 = "d321bf2de576bf25ec4d3e4360faca399afca282" uuid = "bac558e1-5e72-5ebc-8fee-abe8a469f55d" -version = "1.4.1" +version = "1.6.0" [[deps.PDMats]] deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse"] -git-tree-sha1 = "cf494dca75a69712a72b80bc48f59dcf3dea63ec" +git-tree-sha1 = "67eae2738d63117a196f497d7db789821bce61d1" uuid = "90014a1f-27ba-587c-ab20-58faa44d9150" -version = "0.11.16" +version = "0.11.17" [[deps.Parameters]] deps = ["OrderedCollections", "UnPack"] @@ -588,11 +593,17 @@ git-tree-sha1 = "f739b1b3cc7b9949af3b35089931f2b58c289163" uuid = "d236fae5-4411-538c-8e31-a6e3d9e00b46" version = "0.4.12" +[[deps.PrecompileTools]] +deps = ["Preferences"] +git-tree-sha1 = "259e206946c293698122f63e2b513a7c99a244e8" +uuid = "aea7be01-6a6a-4083-8856-8a6e6704d82a" +version = "1.1.1" + [[deps.Preferences]] deps = ["TOML"] -git-tree-sha1 = "47e5f437cc0e7ef2ce8406ce1e7e24d44915f88d" +git-tree-sha1 = "7eb1686b4f04b82f96ed7a4ea5890a4f0c7a09f1" uuid = "21216c6a-2e73-6563-6e65-726566657250" -version = "1.3.0" +version = "1.4.0" [[deps.PrettyPrint]] git-tree-sha1 = "632eb4abab3449ab30c5e1afaa874f0b98b586e4" @@ -617,9 +628,9 @@ version = "1.7.2" [[deps.QuadGK]] deps = ["DataStructures", "LinearAlgebra"] -git-tree-sha1 = "786efa36b7eff813723c4849c90456609cf06661" +git-tree-sha1 = "6ec7ac8412e83d57e313393220879ede1740f9ee" uuid = "1fd47b50-473d-5c70-9696-f719f8f3bcdc" -version = "2.8.1" +version = "2.8.2" [[deps.REPL]] deps = ["InteractiveUtils", "Markdown", "Sockets", "Unicode"] @@ -636,16 +647,16 @@ uuid = "fb686558-2515-59ef-acaa-46db3789a887" version = "0.4.3" [[deps.RecipesBase]] -deps = ["SnoopPrecompile"] -git-tree-sha1 = "261dddd3b862bd2c940cf6ca4d1c8fe593e457c8" +deps = ["PrecompileTools"] +git-tree-sha1 = "5c3d09cc4f31f5fc6af001c250bf1278733100ff" uuid = "3cdcf5f2-1ef4-517c-9805-6587b60abb01" -version = "1.3.3" +version = "1.3.4" [[deps.RecursiveArrayTools]] -deps = ["Adapt", "ArrayInterface", "ChainRulesCore", "DocStringExtensions", "FillArrays", "GPUArraysCore", "IteratorInterfaceExtensions", "LinearAlgebra", "RecipesBase", "Requires", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables", "ZygoteRules"] -git-tree-sha1 = "3dcb2a98436389c0aac964428a5fa099118944de" +deps = ["Adapt", "ArrayInterface", "DocStringExtensions", "GPUArraysCore", "IteratorInterfaceExtensions", "LinearAlgebra", "RecipesBase", "Requires", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables"] +git-tree-sha1 = "02ef02926f30d53b94be443bfaea010c47f6b556" uuid = "731186ca-8d62-57ce-b412-fbd966d074cd" -version = "2.38.0" +version = "2.38.5" [[deps.Reexport]] git-tree-sha1 = "45e428421666073eab6f2da5c9d310d99bb12f9b" @@ -672,9 +683,9 @@ version = "0.4.0+0" [[deps.RuntimeGeneratedFunctions]] deps = ["ExprTools", "SHA", "Serialization"] -git-tree-sha1 = "50314d2ef65fce648975a8e80ae6d8409ebbf835" +git-tree-sha1 = "d7d9ebe28062161c1e314ed643097b0c6fe657d9" uuid = "7e49a35a-f44a-4d26-94aa-eba1b4ca6b47" -version = "0.5.5" +version = "0.5.7" [[deps.SHA]] uuid = "ea8e919c-243c-51af-8825-aaa63cd721ce" @@ -686,16 +697,16 @@ uuid = "94e857df-77ce-4151-89e5-788b33177be4" version = "0.1.0" [[deps.SciMLBase]] -deps = ["ArrayInterface", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "Preferences", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "SnoopPrecompile", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables", "TruncatedStacktraces"] -git-tree-sha1 = "fe55d9f9d73fec26f64881ba8d120607c22a54b0" +deps = ["ADTypes", "ArrayInterface", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "PrecompileTools", "Preferences", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables", "TruncatedStacktraces"] +git-tree-sha1 = "75552338dda481baeb9b9e171f73ecd0171e8f34" uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462" -version = "1.88.0" +version = "1.92.2" [[deps.SciMLOperators]] deps = ["ArrayInterface", "DocStringExtensions", "Lazy", "LinearAlgebra", "Setfield", "SparseArrays", "StaticArraysCore", "Tricks"] -git-tree-sha1 = "8419114acbba861ac49e1ab2750bae5c5eda35c4" +git-tree-sha1 = "90163ebc767cba9f126ea00aeef1d75ed74fe7b0" uuid = "c0aeaf25-5076-4817-a8d5-81caf7dfa961" -version = "0.1.22" +version = "0.2.8" [[deps.Serialization]] uuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b" @@ -736,10 +747,10 @@ deps = ["LinearAlgebra", "Random"] uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" [[deps.SparseDiffTools]] -deps = ["Adapt", "ArrayInterface", "Compat", "DataStructures", "FiniteDiff", "ForwardDiff", "Graphs", "LinearAlgebra", "Requires", "SparseArrays", "StaticArrays", "VertexSafeGraphs"] -git-tree-sha1 = "e19ac47477c9a8fcca06dab5e5471417d5d9d723" +deps = ["ADTypes", "Adapt", "ArrayInterface", "Compat", "DataStructures", "FiniteDiff", "ForwardDiff", "Graphs", "LinearAlgebra", "Reexport", "Requires", "SciMLOperators", "SparseArrays", "StaticArrayInterface", "StaticArrays", "Tricks", "VertexSafeGraphs"] +git-tree-sha1 = "04f060e66a61a909ed59efd79f64943688d7568d" uuid = "47a9eef4-7e08-11e9-0b38-333d64bd3804" -version = "1.31.0" +version = "2.3.0" [[deps.SpecialFunctions]] deps = ["ChainRulesCore", "IrrationalConstants", "LogExpFunctions", "OpenLibm_jll", "OpenSpecFun_jll"] @@ -749,21 +760,21 @@ version = "2.2.0" [[deps.Static]] deps = ["IfElse"] -git-tree-sha1 = "d0435ba43ab5ad1cbb5f0d286ca4ba67029ed3ee" +git-tree-sha1 = "dbde6766fc677423598138a5951269432b0fcc90" uuid = "aedffcd0-7271-4cad-89d0-dc628f76c6d3" -version = "0.8.4" +version = "0.8.7" [[deps.StaticArrayInterface]] deps = ["ArrayInterface", "Compat", "IfElse", "LinearAlgebra", "Requires", "SnoopPrecompile", "SparseArrays", "Static", "SuiteSparse"] -git-tree-sha1 = "5589ab073f8a244d2530b36478f53806f9106002" +git-tree-sha1 = "33040351d2403b84afce74dae2e22d3f5b18edcb" uuid = "0d7ed370-da01-4f52-bd93-41d350b8b718" -version = "1.2.1" +version = "1.4.0" [[deps.StaticArrays]] deps = ["LinearAlgebra", "Random", "StaticArraysCore", "Statistics"] -git-tree-sha1 = "2d7d9e1ddadc8407ffd460e24218e37ef52dd9a3" +git-tree-sha1 = "8982b3607a212b070a5e46eea83eb62b4744ae12" uuid = "90137ffa-7385-5640-81b9-e52037218182" -version = "1.5.16" +version = "1.5.25" [[deps.StaticArraysCore]] git-tree-sha1 = "6b7ba252635a5eff6a0b0664a41ee140a1c9e72a" @@ -776,27 +787,27 @@ uuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2" [[deps.StatsAPI]] deps = ["LinearAlgebra"] -git-tree-sha1 = "f9af7f195fb13589dd2e2d57fdb401717d2eb1f6" +git-tree-sha1 = "45a7769a04a3cf80da1c1c7c60caf932e6f4c9f7" uuid = "82ae8749-77ed-4fe6-ae5f-f523153014b0" -version = "1.5.0" +version = "1.6.0" [[deps.StatsBase]] deps = ["DataAPI", "DataStructures", "LinearAlgebra", "LogExpFunctions", "Missings", "Printf", "Random", "SortingAlgorithms", "SparseArrays", "Statistics", "StatsAPI"] -git-tree-sha1 = "d1bf48bfcc554a3761a133fe3a9bb01488e06916" +git-tree-sha1 = "75ebe04c5bed70b91614d684259b661c9e6274a4" uuid = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91" -version = "0.33.21" +version = "0.34.0" [[deps.StatsFuns]] deps = ["ChainRulesCore", "HypergeometricFunctions", "InverseFunctions", "IrrationalConstants", "LogExpFunctions", "Reexport", "Rmath", "SpecialFunctions"] -git-tree-sha1 = "5aa6250a781e567388f3285fb4b0f214a501b4d5" +git-tree-sha1 = "f625d686d5a88bcd2b15cd81f18f98186fdc0c9a" uuid = "4c63d2b9-4356-54db-8cca-17b64c39e42c" -version = "1.2.1" +version = "1.3.0" [[deps.StrideArraysCore]] deps = ["ArrayInterface", "CloseOpenIntervals", "IfElse", "LayoutPointers", "ManualMemory", "SIMDTypes", "Static", "StaticArrayInterface", "ThreadingUtilities"] -git-tree-sha1 = "2842f1dbd12d59f2728ba79f4002cd6b61808f8b" +git-tree-sha1 = "5ffcee1813efc849f188dce82ca1553bd5f3a476" uuid = "7792a7ef-975c-4747-a70f-980b88e8d1da" -version = "0.4.8" +version = "0.4.14" [[deps.SuiteSparse]] deps = ["Libdl", "LinearAlgebra", "Serialization", "SparseArrays"] @@ -808,10 +819,10 @@ uuid = "bea87d4a-7f5b-5778-9afe-8cc45184846c" version = "5.10.1+0" [[deps.Sundials]] -deps = ["CEnum", "DataStructures", "DiffEqBase", "Libdl", "LinearAlgebra", "Logging", "Reexport", "SciMLBase", "SnoopPrecompile", "SparseArrays", "Sundials_jll"] -git-tree-sha1 = "c033830e3c6fb4260243fc907b1e7e93421e7ae8" +deps = ["CEnum", "DataStructures", "DiffEqBase", "Libdl", "LinearAlgebra", "Logging", "PrecompileTools", "Reexport", "SciMLBase", "SparseArrays", "Sundials_jll"] +git-tree-sha1 = "4289695031d663252f38fd114d3e0020d1461cee" uuid = "c3572dad-4567-51f8-b174-8c6c989267f4" -version = "4.15.1" +version = "4.18.0" [[deps.Sundials_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "Libdl", "OpenBLAS_jll", "Pkg", "SuiteSparse_jll"] @@ -821,21 +832,21 @@ version = "5.2.1+0" [[deps.SymbolicIndexingInterface]] deps = ["DocStringExtensions"] -git-tree-sha1 = "6b764c160547240d868be4e961a5037f47ad7379" +git-tree-sha1 = "f8ab052bfcbdb9b48fad2c80c873aa0d0344dfe5" uuid = "2efcf032-c050-4f8e-a9bb-153293bab1f5" -version = "0.2.1" +version = "0.2.2" [[deps.SymbolicUtils]] deps = ["AbstractTrees", "Bijections", "ChainRulesCore", "Combinatorics", "ConstructionBase", "DataStructures", "DocStringExtensions", "DynamicPolynomials", "IfElse", "LabelledArrays", "LinearAlgebra", "MultivariatePolynomials", "NaNMath", "Setfield", "SparseArrays", "SpecialFunctions", "StaticArrays", "TimerOutputs", "Unityper"] -git-tree-sha1 = "ca0dbe8434ace322cea02fc8cce0dea8d5308e87" +git-tree-sha1 = "5cb1f963f82e7b81305102dd69472fcd3e0e1483" uuid = "d1185830-fcd6-423d-90d6-eec64667417b" -version = "1.0.3" +version = "1.0.5" [[deps.Symbolics]] deps = ["ArrayInterface", "ConstructionBase", "DataStructures", "DiffRules", "Distributions", "DocStringExtensions", "DomainSets", "Groebner", "IfElse", "LaTeXStrings", "LambertW", "Latexify", "Libdl", "LinearAlgebra", "MacroTools", "Markdown", "NaNMath", "RecipesBase", "Reexport", "Requires", "RuntimeGeneratedFunctions", "SciMLBase", "Setfield", "SparseArrays", "SpecialFunctions", "StaticArrays", "SymbolicUtils", "TreeViews"] -git-tree-sha1 = "fce1fd0b13f860128c8b8aab0bab475eeeeb7994" +git-tree-sha1 = "e23ec62c083ca8f15a4b7174331b3b8d1c511e47" uuid = "0c5d862f-8b57-4792-8d23-62f2024744c7" -version = "5.1.0" +version = "5.3.1" [[deps.TOML]] deps = ["Dates"] @@ -850,9 +861,9 @@ version = "1.0.1" [[deps.Tables]] deps = ["DataAPI", "DataValueInterfaces", "IteratorInterfaceExtensions", "LinearAlgebra", "OrderedCollections", "TableTraits", "Test"] -git-tree-sha1 = "c79322d36826aa2f4fd8ecfa96ddb47b174ac78d" +git-tree-sha1 = "1544b926975372da01227b382066ab70e574a3ec" uuid = "bd369af6-aec1-5ad0-b16a-f7cc5008161c" -version = "1.10.0" +version = "1.10.1" [[deps.Tar]] deps = ["ArgTools", "SHA"] @@ -871,9 +882,9 @@ version = "0.5.1" [[deps.TimerOutputs]] deps = ["ExprTools", "Printf"] -git-tree-sha1 = "f2fd3f288dfc6f507b0c3a2eb3bac009251e548b" +git-tree-sha1 = "f548a9e9c490030e545f72074a41edfd0e5bcdd7" uuid = "a759f4b9-e2f1-59dc-863e-4aeb61b1ea8f" -version = "0.5.22" +version = "0.5.23" [[deps.TreeViews]] deps = ["Test"] @@ -882,15 +893,15 @@ uuid = "a2a6695c-b41b-5b7d-aed9-dbfdeacea5d7" version = "0.3.0" [[deps.Tricks]] -git-tree-sha1 = "6bac775f2d42a611cdfcd1fb217ee719630c4175" +git-tree-sha1 = "aadb748be58b492045b4f56166b5188aa63ce549" uuid = "410a4b4d-49e4-4fbc-ab6d-cb71b17b3775" -version = "0.1.6" +version = "0.1.7" [[deps.TruncatedStacktraces]] -deps = ["InteractiveUtils"] -git-tree-sha1 = "7cdbe45f0018b7f681a6b63ad1250ee6f2297a87" +deps = ["InteractiveUtils", "MacroTools", "Preferences"] +git-tree-sha1 = "7bc1632a4eafbe9bd94cf1a784a9a4eb5e040a91" uuid = "781d530d-4396-4725-bb49-402e4bee1e77" -version = "1.0.0" +version = "1.3.0" [[deps.UUIDs]] deps = ["Random", "SHA"] @@ -922,10 +933,10 @@ uuid = "83775a58-1f1d-513f-b197-d71354ab007a" version = "1.2.12+3" [[deps.ZygoteRules]] -deps = ["MacroTools"] -git-tree-sha1 = "8c1a8e4dfacb1fd631745552c8db35d0deb09ea0" +deps = ["ChainRulesCore", "MacroTools"] +git-tree-sha1 = "977aed5d006b840e2e40c0b48984f7463109046d" uuid = "700de1a5-db45-46bc-99cf-38207098b444" -version = "0.2.2" +version = "0.2.3" [[deps.libblastrampoline_jll]] deps = ["Artifacts", "Libdl", "OpenBLAS_jll"] diff --git a/Project.toml b/Project.toml index 35e60a4..ef50009 100644 --- a/Project.toml +++ b/Project.toml @@ -21,7 +21,7 @@ SciMLBase = "0bca4576-84f4-4d90-8ffe-ffa030f20462" SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" SparseDiffTools = "47a9eef4-7e08-11e9-0b38-333d64bd3804" SpecialFunctions = "276daf66-3868-5448-9aa4-cd146d93841b" -StatsBase = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91" +Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2" SuiteSparse = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9" Sundials = "c3572dad-4567-51f8-b174-8c6c989267f4" Symbolics = "0c5d862f-8b57-4792-8d23-62f2024744c7" @@ -38,9 +38,8 @@ ProgressMeter = "1" RecipesBase = "1" RecursiveArrayTools = "2" SciMLBase = "1" -SparseDiffTools = "1" +SparseDiffTools = "1, 2" SpecialFunctions = "1, 2" -StatsBase = "0.3 - 0.33" Sundials = "4" Symbolics = "5" julia = "1" diff --git a/src/PETLION.jl b/src/PETLION.jl index 3ce0f94..705d4e4 100644 --- a/src/PETLION.jl +++ b/src/PETLION.jl @@ -12,7 +12,7 @@ using SHA: sha1 using SparseArrays: sparse, findnz, SparseMatrixCSC, spzeros, spdiagm using SparseDiffTools: matrix_colors, ForwardColorJacCache, forwarddiff_color_jacobian! using SpecialFunctions: erf -using StatsBase: mean +using Statistics: mean using Symbolics: @variables, Num, gradient, jacobian_sparsity, expand_derivatives, Differential, get_variables, sparsejacobian, substitute, simplify, build_function, IfElse, SerialForm import LinearAlgebra