[⚡ AUTOMATED]: Pkg upgrade for 2024-01-16

Files changed:\nM	Manifest.toml

Manifest.toml

@@ -16,6 +16,12 @@ git-tree-sha1 = "faa260e4cb5aba097a73fab382dd4b5819d8ec8c"
 uuid = "1520ce14-60c1-5f80-bbc7-55ef81b5835c"
 version = "0.4.4"
 
+[[Accessors]]
+deps = ["CompositionsBase", "ConstructionBase", "Dates", "InverseFunctions", "LinearAlgebra", "MacroTools", "Requires", "Test"]
+git-tree-sha1 = "cb96992f1bec110ad211b7e410e57ddf7944c16f"
+uuid = "7d9f7c33-5ae7-4f3b-8dc6-eff91059b697"
+version = "0.1.35"
+
 [[Adapt]]
 deps = ["LinearAlgebra", "Requires"]
 git-tree-sha1 = "cde29ddf7e5726c9fb511f340244ea3481267608"
@@ -57,9 +63,9 @@ version = "7.5.1"
 
 [[ArrayLayouts]]
 deps = ["FillArrays", "LinearAlgebra", "SparseArrays"]
-git-tree-sha1 = "b08a4043e1c14096ef8efe4dd97e07de5cacf240"
+git-tree-sha1 = "a45ec4acc9d905f94b47243cff666820bb107789"
 uuid = "4c555306-a7a7-4459-81d9-ec55ddd5c99a"
-version = "1.4.5"
+version = "1.5.2"
 
 [[Artifacts]]
 uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33"
@@ -200,9 +206,9 @@ version = "0.9.23"
 
 [[Bzip2_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
-git-tree-sha1 = "19a35467a82e236ff51bc17a3a44b69ef35185a2"
+git-tree-sha1 = "9e2a6b69137e6969bab0152632dcb3bc108c8bdd"
 uuid = "6e34b625-4abd-537c-b88f-471c36dfa7a0"
-version = "1.0.8+0"
+version = "1.0.8+1"
 
 [[CEnum]]
 git-tree-sha1 = "eb4cb44a499229b3b8426dcfb5dd85333951ff90"
@@ -253,9 +259,9 @@ version = "1.58.1"
 
 [[ChainRulesCore]]
 deps = ["Compat", "LinearAlgebra", "SparseArrays"]
-git-tree-sha1 = "2118cb2765f8197b08e5958cdd17c165427425ee"
+git-tree-sha1 = "c1deebd76f7a443d527fc0430d5758b8b2112ed8"
 uuid = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"
-version = "1.19.0"
+version = "1.19.1"
 
 [[ChangesOfVariables]]
 deps = ["InverseFunctions", "LinearAlgebra", "Test"]
@@ -364,15 +370,20 @@ uuid = "bbf7d656-a473-5ed7-a52c-81e309532950"
 version = "0.3.0"
 
 [[Compat]]
-deps = ["Dates", "LinearAlgebra", "UUIDs"]
-git-tree-sha1 = "886826d76ea9e72b35fcd000e535588f7b60f21d"
+deps = ["Dates", "LinearAlgebra", "TOML", "UUIDs"]
+git-tree-sha1 = "75bd5b6fc5089df449b5d35fa501c846c9b6549b"
 uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
-version = "4.10.1"
+version = "4.12.0"
 
 [[CompilerSupportLibraries_jll]]
 deps = ["Artifacts", "Libdl"]
 uuid = "e66e0078-7015-5450-92f7-15fbd957f2ae"
 
+[[CompositionsBase]]
+git-tree-sha1 = "802bb88cd69dfd1509f6670416bd4434015693ad"
+uuid = "a33af91c-f02d-484b-be07-31d278c5ca2b"
+version = "0.1.2"
+
 [[ComputationalResources]]
 git-tree-sha1 = "52cb3ec90e8a8bea0e62e275ba577ad0f74821f7"
 uuid = "ed09eef8-17a6-5b46-8889-db040fac31e3"
@@ -441,9 +452,9 @@ version = "1.6.1"
 
 [[DataStructures]]
 deps = ["Compat", "InteractiveUtils", "OrderedCollections"]
-git-tree-sha1 = "3dbd312d370723b6bb43ba9d02fc36abade4518d"
+git-tree-sha1 = "ac67408d9ddf207de5cfa9a97e114352430f01ed"
 uuid = "864edb3b-99cc-5e75-8d2d-829cb0a9cfe8"
-version = "0.18.15"
+version = "0.18.16"
 
 [[DataValueInterfaces]]
 git-tree-sha1 = "bfc1187b79289637fa0ef6d4436ebdfe6905cbd6"
@@ -536,9 +547,9 @@ uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b"
 
 [[Distributions]]
 deps = ["ChainRulesCore", "DensityInterface", "FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsAPI", "StatsBase", "StatsFuns", "Test"]
-git-tree-sha1 = "9242eec9b7e2e14f9952e8ea1c7e31a50501d587"
+git-tree-sha1 = "7c302d7a5fec5214eb8a5a4c466dcf7a51fcf169"
 uuid = "31c24e10-a181-5473-b8eb-7969acd0382f"
-version = "0.25.104"
+version = "0.25.107"
 
 [[DocStringExtensions]]
 deps = ["LibGit2"]
@@ -562,10 +573,9 @@ uuid = "4e289a0a-7415-4d19-859d-a7e5c4648b56"
 version = "1.0.4"
 
 [[EnzymeCore]]
-deps = ["Adapt"]
-git-tree-sha1 = "2efe862de93cd87f620ad6ac9c9e3f83f1b2841b"
+git-tree-sha1 = "59c44d8fbc651c0395d8a6eda64b05ce316f58b4"
 uuid = "f151be2c-9106-41f4-ab19-57ee4f262869"
-version = "0.6.4"
+version = "0.6.5"
 
 [[EpollShim_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
@@ -651,9 +661,9 @@ version = "2.0.0"
 
 [[FileIO]]
 deps = ["Pkg", "Requires", "UUIDs"]
-git-tree-sha1 = "299dc33549f68299137e51e6d49a13b5b1da9673"
+git-tree-sha1 = "c5c28c245101bd59154f649e19b038d15901b5dc"
 uuid = "5789e2e9-d7fb-5bc7-8068-2c6fae9b9549"
-version = "1.16.1"
+version = "1.16.2"
 
 [[FilePathsBase]]
 deps = ["Compat", "Dates", "Mmap", "Printf", "Test", "UUIDs"]
@@ -787,9 +797,9 @@ version = "0.5.3"
 
 [[GenomicAnnotations]]
 deps = ["BioGenerics", "BioSequences", "CodecZlib", "DataFrames", "TranscodingStreams"]
-git-tree-sha1 = "268f710748354367e6a971cd644de800075e37dc"
+git-tree-sha1 = "c8642dd097178b081853622be988c90c47e62712"
 uuid = "4f8a0a0a-376d-5ac0-ab14-e88793df67f0"
-version = "0.3.3"
+version = "0.3.6"
 
 [[GenomicFeatures]]
 deps = ["BioGenerics", "DataStructures", "IntervalTrees"]
@@ -1122,9 +1132,9 @@ version = "0.5.0"
 
 [[JLD2]]
 deps = ["FileIO", "MacroTools", "Mmap", "OrderedCollections", "Pkg", "PrecompileTools", "Printf", "Reexport", "Requires", "TranscodingStreams", "UUIDs"]
-git-tree-sha1 = "c2d0f45afcb5f6209155670bffd100c3b4937ea3"
+git-tree-sha1 = "853b9e0b876e8c7093a824c4f83c619d23525e64"
 uuid = "033835bb-8acc-5ee8-8aae-3f567f8a3819"
-version = "0.4.40"
+version = "0.4.43"
 
 [[JLFzf]]
 deps = ["Pipe", "REPL", "Random", "fzf_jll"]
@@ -1176,9 +1186,9 @@ version = "3.0.1+0"
 
 [[JuliaInterpreter]]
 deps = ["CodeTracking", "InteractiveUtils", "Random", "UUIDs"]
-git-tree-sha1 = "e49bce680c109bc86e3e75ebcb15040d6ad9e1d3"
+git-tree-sha1 = "04663b9e1eb0d0eabf76a6d0752e0dac83d53b36"
 uuid = "aa1ae85d-cabe-5617-a682-6adf51b2e16a"
-version = "0.9.27"
+version = "0.9.28"
 
 [[JuliaWebAPI]]
 deps = ["Base64", "HTTP", "JSON", "Serialization", "Sockets", "ZMQ"]
@@ -1444,9 +1454,9 @@ version = "1.0.0"
 
 [[MacroTools]]
 deps = ["Markdown", "Random"]
-git-tree-sha1 = "b211c553c199c111d998ecdaf7623d1b89b69f93"
+git-tree-sha1 = "2fa9ee3e63fd3a4f7a9a4f4744a52f4856de82df"
 uuid = "1914dd2f-81c6-5fcd-8719-6d5c9610ff09"
-version = "0.5.12"
+version = "0.5.13"
 
 [[MakieCore]]
 deps = ["Observables", "REPL"]
@@ -1476,15 +1486,9 @@ uuid = "d6f4376e-aef5-505a-96c1-9c027394607a"
 
 [[MathOptInterface]]
 deps = ["BenchmarkTools", "CodecBzip2", "CodecZlib", "DataStructures", "ForwardDiff", "JSON", "LinearAlgebra", "MutableArithmetics", "NaNMath", "OrderedCollections", "PrecompileTools", "Printf", "SparseArrays", "SpecialFunctions", "Test", "Unicode"]
-git-tree-sha1 = "362ae34a5291a79e16b8eb87b5738532c5e799ff"
+git-tree-sha1 = "e2ae8cf5ac6daf5a3959f7f6ded9c2028b61d09d"
 uuid = "b8f27783-ece8-5eb3-8dc8-9495eed66fee"
-version = "1.23.0"
-
-[[MathProgBase]]
-deps = ["LinearAlgebra", "SparseArrays"]
-git-tree-sha1 = "9abbe463a1e9fc507f12a69e7f29346c2cdc472c"
-uuid = "fdba3010-5040-5b88-9595-932c9decdf73"
-version = "0.7.8"
+version = "1.25.1"
 
 [[MbedTLS]]
 deps = ["Dates", "MbedTLS_jll", "MozillaCACerts_jll", "NetworkOptions", "Random", "Sockets"]
@@ -1572,10 +1576,10 @@ uuid = "d41bc354-129a-5804-8e4c-c37616107c6c"
 version = "7.8.3"
 
 [[NLopt]]
-deps = ["MathOptInterface", "MathProgBase", "NLopt_jll"]
-git-tree-sha1 = "5a7e32c569200a8a03c3d55d286254b0321cd262"
+deps = ["MathOptInterface", "NLopt_jll"]
+git-tree-sha1 = "d1d09c342c3dd9b3bae985b088bd928632e4d79e"
 uuid = "76087f3c-5699-56af-9a33-bf431cd00edd"
-version = "0.6.5"
+version = "1.0.1"
 
 [[NLopt_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
@@ -1927,9 +1931,9 @@ version = "1.9.0"
 
 [[ProtoBuf]]
 deps = ["BufferedStreams", "Dates", "EnumX", "TOML", "TranscodingStreams"]
-git-tree-sha1 = "dc85dc33abde04b3c2f687834a5551994b27c328"
+git-tree-sha1 = "f2bfddd629ba7a53ed789d6427d64e0e4c378ef8"
 uuid = "3349acd9-ac6a-5e09-bcdb-63829b23a429"
-version = "1.0.14"
+version = "1.0.15"
 
 [[QOI]]
 deps = ["ColorTypes", "FileIO", "FixedPointNumbers"]
@@ -1945,15 +1949,15 @@ version = "5.15.3+2"
 
 [[QuadGK]]
 deps = ["DataStructures", "LinearAlgebra"]
-git-tree-sha1 = "9ebcd48c498668c7fa0e97a9cae873fbee7bfee1"
+git-tree-sha1 = "9b23c31e76e333e6fb4c1595ae6afa74966a729e"
 uuid = "1fd47b50-473d-5c70-9696-f719f8f3bcdc"
-version = "2.9.1"
+version = "2.9.4"
 
 [[QuantEcon]]
 deps = ["DSP", "DataStructures", "Distributions", "FFTW", "Graphs", "LinearAlgebra", "Markdown", "NLopt", "Optim", "Pkg", "Primes", "Random", "SparseArrays", "SpecialFunctions", "Statistics", "StatsBase", "Test"]
-git-tree-sha1 = "4f989614763519b089f4127063c1795d7a412753"
+git-tree-sha1 = "034293b29fdbcae73aeb7ca0b2755e693f04701b"
 uuid = "fcd29c91-0bd7-5a09-975d-7ac3f643a60c"
-version = "0.16.5"
+version = "0.16.6"
 
 [[Quaternions]]
 deps = ["LinearAlgebra", "Random", "RealDot"]
@@ -2064,10 +2068,10 @@ uuid = "f50d1b31-88e8-58de-be2c-1cc44531875f"
 version = "0.4.0+0"
 
 [[Roots]]
-deps = ["ChainRulesCore", "CommonSolve", "Printf", "Setfield"]
-git-tree-sha1 = "0f1d92463a020321983d04c110f476c274bafe2e"
+deps = ["Accessors", "ChainRulesCore", "CommonSolve", "Printf"]
+git-tree-sha1 = "af540898b1e6ca7aa6ba7213c05052809c6c522a"
 uuid = "f2b01f46-fcfa-551c-844a-d8ac1e96c665"
-version = "2.0.22"
+version = "2.1.0"
 
 [[Rotations]]
 deps = ["LinearAlgebra", "Quaternions", "Random", "StaticArrays"]
@@ -2259,9 +2263,9 @@ version = "1.5.0"
 
 [[StaticArrays]]
 deps = ["LinearAlgebra", "PrecompileTools", "Random", "StaticArraysCore", "Statistics"]
-git-tree-sha1 = "42d5373c10272d14ef49cc68ffc22df3b93c549a"
+git-tree-sha1 = "f68dd04d131d9a8a8eb836173ee8f105c360b0c5"
 uuid = "90137ffa-7385-5640-81b9-e52037218182"
-version = "1.8.2"
+version = "1.9.1"
 
 [[StaticArraysCore]]
 git-tree-sha1 = "36b3d696ce6366023a0ea192b4cd442268995a0d"
@@ -2813,9 +2817,9 @@ version = "0.6.68"
 
 [[ZygoteRules]]
 deps = ["ChainRulesCore", "MacroTools"]
-git-tree-sha1 = "9d749cd449fb448aeca4feee9a2f4186dbb5d184"
+git-tree-sha1 = "27798139afc0a2afa7b1824c206d5e87ea587a00"
 uuid = "700de1a5-db45-46bc-99cf-38207098b444"
-version = "0.2.4"
+version = "0.2.5"
 
 [[fzf_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]