Merge pull request #3262 from CliMA/ck/up_deps

Update dependencies

.dev/Manifest.toml

@@ -4,13 +4,6 @@ julia_version = "1.10.4"
 manifest_format = "2.0"
 project_hash = "b280bcf3b481823c97fa1a62c1b5e65114b8fa18"
 
-[[deps.ArgTools]]
-uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f"
-version = "1.1.1"
-
-[[deps.Artifacts]]
-uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33"
-
 [[deps.Base64]]
 uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f"
 
@@ -54,14 +47,6 @@ version = "0.18.20"
 deps = ["Printf"]
 uuid = "ade2ca70-3891-5945-98fb-dc099432e06a"
 
-[[deps.Downloads]]
-deps = ["ArgTools", "FileWatching", "LibCURL", "NetworkOptions"]
-uuid = "f43a241f-c20a-4ad4-852c-f6b1247861c6"
-version = "1.6.0"
-
-[[deps.FileWatching]]
-uuid = "7b1f6079-737a-58dc-b8bc-7a2ca5c1b5ee"
-
 [[deps.Glob]]
 git-tree-sha1 = "97285bbd5230dd766e9ef6749b80fc617126d496"
 uuid = "c27321d9-0574-5035-807b-f59d2c89b15c"
@@ -78,61 +63,18 @@ uuid = "682c06a0-de6a-54ab-a142-c8b1cf79cde6"
 version = "0.21.4"
 
 [[deps.JuliaFormatter]]
-deps = ["CSTParser", "CommonMark", "DataStructures", "Glob", "Pkg", "PrecompileTools", "Tokenize"]
-git-tree-sha1 = "4b0b04fe63e02eed776181e14ebc1f48d787ceec"
+deps = ["CSTParser", "CommonMark", "DataStructures", "Glob", "PrecompileTools", "TOML", "Tokenize"]
+git-tree-sha1 = "bb4696471330275adfd6c78c6173f276e8c067aa"
 uuid = "98e50ef6-434e-11e9-1051-2b60c6c9e899"
-version = "1.0.59"
-
-[[deps.LibCURL]]
-deps = ["LibCURL_jll", "MozillaCACerts_jll"]
-uuid = "b27032c2-a3e7-50c8-80cd-2d36dbcbfd21"
-version = "0.6.4"
-
-[[deps.LibCURL_jll]]
-deps = ["Artifacts", "LibSSH2_jll", "Libdl", "MbedTLS_jll", "Zlib_jll", "nghttp2_jll"]
-uuid = "deac9b47-8bc7-5906-a0fe-35ac56dc84c0"
-version = "8.4.0+0"
-
-[[deps.LibGit2]]
-deps = ["Base64", "LibGit2_jll", "NetworkOptions", "Printf", "SHA"]
-uuid = "76f85450-5226-5b5a-8eaa-529ad045b433"
-
-[[deps.LibGit2_jll]]
-deps = ["Artifacts", "LibSSH2_jll", "Libdl", "MbedTLS_jll"]
-uuid = "e37daf67-58a4-590a-8e99-b0245dd2ffc5"
-version = "1.6.4+0"
-
-[[deps.LibSSH2_jll]]
-deps = ["Artifacts", "Libdl", "MbedTLS_jll"]
-uuid = "29816b5a-b9ab-546f-933c-edad1886dfa8"
-version = "1.11.0+1"
-
-[[deps.Libdl]]
-uuid = "8f399da3-3557-5675-b5ff-fb832c97cbdb"
-
-[[deps.Logging]]
-uuid = "56ddb016-857b-54e1-b83d-db4d58db5568"
+version = "1.0.60"
 
 [[deps.Markdown]]
 deps = ["Base64"]
 uuid = "d6f4376e-aef5-505a-96c1-9c027394607a"
 
-[[deps.MbedTLS_jll]]
-deps = ["Artifacts", "Libdl"]
-uuid = "c8ffd9c3-330d-5841-b78e-0817d7145fa1"
-version = "2.28.2+1"
-
 [[deps.Mmap]]
 uuid = "a63ad114-7e13-5084-954f-fe012c677804"
 
-[[deps.MozillaCACerts_jll]]
-uuid = "14a3606d-f60d-562e-9121-12d972cd8159"
-version = "2023.1.10"
-
-[[deps.NetworkOptions]]
-uuid = "ca575930-c2e3-43a9-ace4-1e988b2c1908"
-version = "1.2.0"
-
 [[deps.OrderedCollections]]
 git-tree-sha1 = "dfdf5519f235516220579f949664f1bf44e741c5"
 uuid = "bac558e1-5e72-5ebc-8fee-abe8a469f55d"
@@ -144,11 +86,6 @@ git-tree-sha1 = "8489905bcdbcfac64d1daa51ca07c0d8f0283821"
 uuid = "69de0a69-1ddd-5017-9359-2bf0b02dc9f0"
 version = "2.8.1"
 
-[[deps.Pkg]]
-deps = ["Artifacts", "Dates", "Downloads", "FileWatching", "LibGit2", "Libdl", "Logging", "Markdown", "Printf", "REPL", "Random", "SHA", "Serialization", "TOML", "Tar", "UUIDs", "p7zip_jll"]
-uuid = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f"
-version = "1.10.0"
-
 [[deps.PrecompileTools]]
 deps = ["Preferences"]
 git-tree-sha1 = "5aa36f7049a63a1528fe8f7c3f2113413ffd4e1f"
@@ -165,10 +102,6 @@ version = "1.4.3"
 deps = ["Unicode"]
 uuid = "de0858da-6303-5e67-8744-51eddeeeb8d7"
 
-[[deps.REPL]]
-deps = ["InteractiveUtils", "Markdown", "Sockets", "Unicode"]
-uuid = "3fa0cd96-eef1-5676-8a61-b3b8758bbffb"
-
 [[deps.Random]]
 deps = ["SHA"]
 uuid = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"
@@ -177,22 +110,11 @@ uuid = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"
 uuid = "ea8e919c-243c-51af-8825-aaa63cd721ce"
 version = "0.7.0"
 
-[[deps.Serialization]]
-uuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b"
-
-[[deps.Sockets]]
-uuid = "6462fe0b-24de-5631-8697-dd941f90decc"
-
 [[deps.TOML]]
 deps = ["Dates"]
 uuid = "fa267f1f-6049-4f14-aa54-33bafae1ed76"
 version = "1.0.3"
 
-[[deps.Tar]]
-deps = ["ArgTools", "SHA"]
-uuid = "a4e569a6-e804-4fa4-b0f3-eef7a1d5b13e"
-version = "1.10.0"
-
 [[deps.Tokenize]]
 git-tree-sha1 = "468b4685af4abe0e9fd4d7bf495a6554a6276e75"
 uuid = "0796e94c-ce3b-5d07-9a54-7f471281c624"
@@ -209,18 +131,3 @@ uuid = "cf7118a7-6976-5b1a-9a39-7adc72f591a4"
 
 [[deps.Unicode]]
 uuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5"
-
-[[deps.Zlib_jll]]
-deps = ["Libdl"]
-uuid = "83775a58-1f1d-513f-b197-d71354ab007a"
-version = "1.2.13+1"
-
-[[deps.nghttp2_jll]]
-deps = ["Artifacts", "Libdl"]
-uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d"
-version = "1.52.0+1"
-
-[[deps.p7zip_jll]]
-deps = ["Artifacts", "Libdl"]
-uuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0"
-version = "17.4.0+2"

docs/Manifest.toml

@@ -317,9 +317,9 @@ version = "0.6.4"
 
 [[deps.ClimaCore]]
 deps = ["Adapt", "BandedMatrices", "BlockArrays", "ClimaComms", "CubedSphere", "DataStructures", "DocStringExtensions", "ForwardDiff", "GaussQuadrature", "GilbertCurves", "HDF5", "InteractiveUtils", "IntervalSets", "KrylovKit", "LinearAlgebra", "MultiBroadcastFusion", "NVTX", "PkgVersion", "RecursiveArrayTools", "RootSolvers", "SparseArrays", "StaticArrays", "Statistics", "Unrolled"]
-git-tree-sha1 = "3c05a897d67276ff8cfbdac4c92a5ad1da599c00"
+git-tree-sha1 = "2f1ea2708acfc18fcdd6f36ab8fd461aade78505"
 uuid = "d414da3d-4745-48bb-8d80-42e94e092884"
-version = "0.14.11"
+version = "0.14.12"
 
     [deps.ClimaCore.extensions]
     ClimaCoreCUDAExt = "CUDA"
@@ -359,9 +359,9 @@ version = "0.7.33"
 
 [[deps.ClimaUtilities]]
 deps = ["Artifacts", "Dates"]
-git-tree-sha1 = "d572737e623699c37cdc8bb63d789fedc3dd3a95"
+git-tree-sha1 = "286cf36603ec68538dda4b0333af694fe70dd628"
 uuid = "b3f4f4ca-9299-4f7f-bd9b-81e1242a7513"
-version = "0.1.13"
+version = "0.1.14"
 
     [deps.ClimaUtilities.extensions]
     ClimaUtilitiesClimaCommsCUDAExt = ["ClimaComms", "CUDA"]
@@ -457,10 +457,10 @@ uuid = "38540f10-b2f7-11e9-35d8-d573e4eb0ff2"
 version = "0.2.4"
 
 [[deps.CommonSubexpressions]]
-deps = ["MacroTools", "Test"]
-git-tree-sha1 = "7b8a93dba8af7e3b42fecabf646260105ac373f7"
+deps = ["MacroTools"]
+git-tree-sha1 = "cda2cfaebb4be89c9084adaca7dd7333369715c5"
 uuid = "bbf7d656-a473-5ed7-a52c-81e309532950"
-version = "0.3.0"
+version = "0.3.1"
 
 [[deps.CommonWorldInvalidations]]
 git-tree-sha1 = "ae52d1c52048455e85a387fbee9be553ec2b68d0"
@@ -1230,9 +1230,9 @@ version = "1.14.0"
 
 [[deps.JSONSchema]]
 deps = ["Downloads", "JSON", "JSON3", "URIs"]
-git-tree-sha1 = "12b043193737b6f3224715c642a1ae2097b0e75d"
+git-tree-sha1 = "243f1cdb476835d7c249deb9f29ad6b7827da7d3"
 uuid = "7d188eb4-7ad8-530c-ae41-71a32a6d4692"
-version = "1.4.0"
+version = "1.4.1"
 
 [[deps.JpegTurbo]]
 deps = ["CEnum", "FileIO", "ImageCore", "JpegTurbo_jll", "TOML"]
@@ -1259,14 +1259,16 @@ uuid = "ef3ab10e-7fda-4108-b977-705223b18434"
 version = "0.6.0"
 
 [[deps.KernelAbstractions]]
-deps = ["Adapt", "Atomix", "InteractiveUtils", "LinearAlgebra", "MacroTools", "PrecompileTools", "Requires", "SparseArrays", "StaticArrays", "UUIDs", "UnsafeAtomics", "UnsafeAtomicsLLVM"]
-git-tree-sha1 = "0fac59881e91c7233a9b0d47f4b7d9432e534f0f"
+deps = ["Adapt", "Atomix", "InteractiveUtils", "MacroTools", "PrecompileTools", "Requires", "StaticArrays", "UUIDs", "UnsafeAtomics", "UnsafeAtomicsLLVM"]
+git-tree-sha1 = "35ceea58aa34ad08b1ae00a52622c62d1cfb8ce2"
 uuid = "63c18a36-062a-441e-b654-da1e3ab1ce7c"
-version = "0.9.23"
-weakdeps = ["EnzymeCore"]
+version = "0.9.24"
+weakdeps = ["EnzymeCore", "LinearAlgebra", "SparseArrays"]
 
     [deps.KernelAbstractions.extensions]
     EnzymeExt = "EnzymeCore"
+    LinearAlgebraExt = "LinearAlgebra"
+    SparseArraysExt = "SparseArrays"
 
 [[deps.KernelDensity]]
 deps = ["Distributions", "DocStringExtensions", "FFTW", "Interpolations", "StatsBase"]
@@ -1298,9 +1300,9 @@ version = "3.100.2+0"
 
 [[deps.LLVM]]
 deps = ["CEnum", "LLVMExtra_jll", "Libdl", "Preferences", "Printf", "Requires", "Unicode"]
-git-tree-sha1 = "2470e69781ddd70b8878491233cd09bc1bd7fc96"
+git-tree-sha1 = "b351d72436ddecd27381a07c242ba27282a6c8a7"
 uuid = "929cbde3-209d-540e-8aea-75f648917ca0"
-version = "8.1.0"
+version = "9.0.0"
 
     [deps.LLVM.extensions]
     BFloat16sExt = "BFloat16s"
@@ -1310,9 +1312,9 @@ version = "8.1.0"
 
 [[deps.LLVMExtra_jll]]
 deps = ["Artifacts", "JLLWrappers", "LazyArtifacts", "Libdl", "TOML"]
-git-tree-sha1 = "597d1c758c9ae5d985ba4202386a607c675ee700"
+git-tree-sha1 = "f42bec1e12f42ec251541f6d0482d520a4638b17"
 uuid = "dad2f222-ce93-54a1-a47d-0025e8a3acab"
-version = "0.0.31+0"
+version = "0.0.33+0"
 
 [[deps.LLVMOpenMP_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
@@ -1614,10 +1616,14 @@ uuid = "0a4f8689-d25c-4efe-a92b-7142dfc1aa53"
 version = "0.6.1"
 
 [[deps.MaybeInplace]]
-deps = ["ArrayInterface", "LinearAlgebra", "MacroTools", "SparseArrays"]
-git-tree-sha1 = "1b9e613f2ca3b6cdcbfe36381e17ca2b66d4b3a1"
+deps = ["ArrayInterface", "LinearAlgebra", "MacroTools"]
+git-tree-sha1 = "54e2fdc38130c05b42be423e90da3bade29b74bd"
 uuid = "bb5d69b7-63fc-4a16-80bd-7e42200c7bdb"
-version = "0.1.3"
+version = "0.1.4"
+weakdeps = ["SparseArrays"]
+
+    [deps.MaybeInplace.extensions]
+    MaybeInplaceSparseArraysExt = "SparseArrays"
 
 [[deps.MbedTLS_jll]]
 deps = ["Artifacts", "Libdl"]
@@ -1864,9 +1870,9 @@ version = "0.5.12"
 
 [[deps.Pango_jll]]
 deps = ["Artifacts", "Cairo_jll", "Fontconfig_jll", "FreeType2_jll", "FriBidi_jll", "Glib_jll", "HarfBuzz_jll", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "cb5a2ab6763464ae0f19c86c56c63d4a2b0f5bda"
+git-tree-sha1 = "9dd97171646850ee607593965ce1f55063d8d3f9"
 uuid = "36c8627f-9965-5494-a995-c6b170f724f3"
-version = "1.52.2+0"
+version = "1.54.0+0"
 
 [[deps.Parameters]]
 deps = ["OrderedCollections", "UnPack"]
@@ -2133,9 +2139,9 @@ 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 = "0bd2d45a5d7ed2eaaba745fd2a4c3d2e0eab7844"
+git-tree-sha1 = "7bc708ae6f9cb741f204cb6c9dda176e79fb4260"
 uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462"
-version = "2.50.1"
+version = "2.50.2"
 
     [deps.SciMLBase.extensions]
     SciMLBaseChainRulesCoreExt = "ChainRulesCore"
@@ -2575,9 +2581,9 @@ version = "0.2.1"
 
 [[deps.UnsafeAtomicsLLVM]]
 deps = ["LLVM", "UnsafeAtomics"]
-git-tree-sha1 = "4073c836c2befcb041e5fe306cb6abf621eb3140"
+git-tree-sha1 = "2d17fabcd17e67d7625ce9c531fb9f40b7c42ce4"
 uuid = "d80eeb9a-aca5-4d75-85e5-170c8b632249"
-version = "0.2.0"
+version = "0.2.1"
 
 [[deps.VectorInterface]]
 deps = ["LinearAlgebra"]