Update Oceananigans

Manifest.toml

@@ -28,9 +28,9 @@ version = "0.4.5"
 
 [[deps.Adapt]]
 deps = ["LinearAlgebra", "Requires"]
-git-tree-sha1 = "0fb305e0253fd4e833d486914367a2ee2c2e78d0"
+git-tree-sha1 = "6a55b747d1812e699320963ffde36f1ebdda4099"
 uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"
-version = "4.0.1"
+version = "4.0.4"
 weakdeps = ["StaticArrays"]
 
     [deps.Adapt.extensions]
@@ -41,24 +41,28 @@ uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f"
 version = "1.1.1"
 
 [[deps.ArrayInterface]]
-deps = ["Adapt", "LinearAlgebra", "Requires", "SparseArrays", "SuiteSparse"]
-git-tree-sha1 = "c5aeb516a84459e0318a02507d2261edad97eb75"
+deps = ["Adapt", "LinearAlgebra", "SparseArrays", "SuiteSparse"]
+git-tree-sha1 = "44691067188f6bd1b2289552a23e4b7572f4528d"
 uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9"
-version = "7.7.1"
+version = "7.9.0"
 
     [deps.ArrayInterface.extensions]
     ArrayInterfaceBandedMatricesExt = "BandedMatrices"
     ArrayInterfaceBlockBandedMatricesExt = "BlockBandedMatrices"
     ArrayInterfaceCUDAExt = "CUDA"
+    ArrayInterfaceChainRulesExt = "ChainRules"
     ArrayInterfaceGPUArraysCoreExt = "GPUArraysCore"
+    ArrayInterfaceReverseDiffExt = "ReverseDiff"
     ArrayInterfaceStaticArraysCoreExt = "StaticArraysCore"
     ArrayInterfaceTrackerExt = "Tracker"
 
     [deps.ArrayInterface.weakdeps]
     BandedMatrices = "aae01518-5342-5314-be14-df237901396f"
     BlockBandedMatrices = "ffab5731-97b5-5995-9138-79e8c1846df0"
     CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba"
+    ChainRules = "082447d4-558c-5d27-93f4-14fc19e9eca2"
     GPUArraysCore = "46192b85-c4d5-4398-a991-12ede77f4527"
+    ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267"
     StaticArraysCore = "1e83bf80-4336-4d27-bf5d-d5a4f845583c"
     Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c"
 
@@ -151,9 +155,9 @@ version = "0.11.1+0"
 
 [[deps.ChainRulesCore]]
 deps = ["Compat", "LinearAlgebra"]
-git-tree-sha1 = "aef70bb349b20aa81a82a19704c3ef339d4ee494"
+git-tree-sha1 = "575cd02e080939a33b6df6c5853d14924c08e35b"
 uuid = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4"
-version = "1.22.1"
+version = "1.23.0"
 weakdeps = ["SparseArrays"]
 
     [deps.ChainRulesCore.extensions]
@@ -212,15 +216,15 @@ version = "1.0.5+1"
 
 [[deps.ConcurrentUtilities]]
 deps = ["Serialization", "Sockets"]
-git-tree-sha1 = "9c4708e3ed2b799e6124b5673a712dda0b596a9b"
+git-tree-sha1 = "6cbbd4d241d7e6579ab354737f4dd95ca43946e1"
 uuid = "f0e56b4a-5159-44fe-b623-3e5288b988bb"
-version = "2.3.1"
+version = "2.4.1"
 
 [[deps.ConstructionBase]]
 deps = ["LinearAlgebra"]
-git-tree-sha1 = "c53fc348ca4d40d7b371e71fd52251839080cbc9"
+git-tree-sha1 = "260fd2400ed2dab602a7c15cf10c1933c59930a2"
 uuid = "187b0558-2788-49d3-abe0-74a17ed4e7c9"
-version = "1.5.4"
+version = "1.5.5"
 
     [deps.ConstructionBase.extensions]
     ConstructionBaseIntervalSetsExt = "IntervalSets"
@@ -266,9 +270,9 @@ version = "1.6.1"
 
 [[deps.DataStructures]]
 deps = ["Compat", "InteractiveUtils", "OrderedCollections"]
-git-tree-sha1 = "1fb174f0d48fe7d142e1109a10636bc1d14f5ac2"
+git-tree-sha1 = "0f4b5d62a88d8f59003e43c25a8a90de9eb76317"
 uuid = "864edb3b-99cc-5e75-8d2d-829cb0a9cfe8"
-version = "0.18.17"
+version = "0.18.18"
 
 [[deps.DataValueInterfaces]]
 git-tree-sha1 = "bfc1187b79289637fa0ef6d4436ebdfe6905cbd6"
@@ -393,9 +397,9 @@ version = "0.4.9"
 
 [[deps.FileIO]]
 deps = ["Pkg", "Requires", "UUIDs"]
-git-tree-sha1 = "c5c28c245101bd59154f649e19b038d15901b5dc"
+git-tree-sha1 = "82d8afa92ecf4b52d78d869f038ebfb881267322"
 uuid = "5789e2e9-d7fb-5bc7-8068-2c6fae9b9549"
-version = "1.16.2"
+version = "1.16.3"
 
 [[deps.FileWatching]]
 uuid = "7b1f6079-737a-58dc-b8bc-7a2ca5c1b5ee"
@@ -413,9 +417,9 @@ weakdeps = ["SparseArrays", "Statistics"]
 
 [[deps.FiniteDiff]]
 deps = ["ArrayInterface", "LinearAlgebra", "Requires", "Setfield", "SparseArrays"]
-git-tree-sha1 = "73d1214fec245096717847c62d389a5d2ac86504"
+git-tree-sha1 = "bc0c5092d6caaea112d3c8e3b238d61563c58d5f"
 uuid = "6a86dc24-6348-571c-b903-95158fe2bd41"
-version = "2.22.0"
+version = "2.23.0"
 
     [deps.FiniteDiff.extensions]
     FiniteDiffBandedMatricesExt = "BandedMatrices"
@@ -501,9 +505,9 @@ version = "1.14.3+1"
 
 [[deps.HTTP]]
 deps = ["Base64", "CodecZlib", "ConcurrentUtilities", "Dates", "ExceptionUnwrapping", "Logging", "LoggingExtras", "MbedTLS", "NetworkOptions", "OpenSSL", "Random", "SimpleBufferStream", "Sockets", "URIs", "UUIDs"]
-git-tree-sha1 = "ac7b73d562b8f4287c3b67b4c66a5395a19c1ae8"
+git-tree-sha1 = "995f762e0182ebc50548c434c171a5bb6635f8e4"
 uuid = "cd3eb016-35fb-5094-929b-558a96fad6f3"
-version = "1.10.2"
+version = "1.10.4"
 
 [[deps.Hwloc_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
@@ -540,9 +544,13 @@ uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240"
 
 [[deps.InverseFunctions]]
 deps = ["Test"]
-git-tree-sha1 = "68772f49f54b479fa88ace904f6127f0a3bb2e46"
+git-tree-sha1 = "896385798a8d49a255c398bd49162062e4a4c435"
 uuid = "3587e190-3f89-42d0-90ee-14403ec27112"
-version = "0.1.12"
+version = "0.1.13"
+weakdeps = ["Dates"]
+
+    [deps.InverseFunctions.extensions]
+    DatesExt = "Dates"
 
 [[deps.InvertedIndices]]
 git-tree-sha1 = "0dc7b50b8d436461be01300fd8cd45aa0274b038"
@@ -603,9 +611,9 @@ version = "0.2.1+0"
 
 [[deps.KernelAbstractions]]
 deps = ["Adapt", "Atomix", "InteractiveUtils", "LinearAlgebra", "MacroTools", "PrecompileTools", "Requires", "SparseArrays", "StaticArrays", "UUIDs", "UnsafeAtomics", "UnsafeAtomicsLLVM"]
-git-tree-sha1 = "c7753cc3febe006708ce6798482004241f7d890b"
+git-tree-sha1 = "ed7167240f40e62d97c1f5f7735dea6de3cc5c49"
 uuid = "63c18a36-062a-441e-b654-da1e3ab1ce7c"
-version = "0.9.17"
+version = "0.9.18"
 
     [deps.KernelAbstractions.extensions]
     EnzymeExt = "EnzymeCore"
@@ -621,9 +629,9 @@ version = "0.10.1"
 
 [[deps.LLVM]]
 deps = ["CEnum", "LLVMExtra_jll", "Libdl", "Preferences", "Printf", "Requires", "Unicode"]
-git-tree-sha1 = "ddab4d40513bce53c8e3157825e245224f74fae7"
+git-tree-sha1 = "ab01dde107f21aa76144d0771dccc08f152ccac7"
 uuid = "929cbde3-209d-540e-8aea-75f648917ca0"
-version = "6.6.0"
+version = "6.6.2"
 weakdeps = ["BFloat16s"]
 
     [deps.LLVM.extensions]
@@ -824,9 +832,9 @@ version = "1.4.1"
 
 [[deps.NCDatasets]]
 deps = ["CFTime", "CommonDataModel", "DataStructures", "Dates", "DiskArrays", "NetCDF_jll", "NetworkOptions", "Printf"]
-git-tree-sha1 = "98ca95cf41116a24e46dc9a06fa22b923e8411b7"
+git-tree-sha1 = "d40d24d12f710c39d3a66be99c567ce0032f28a7"
 uuid = "85f8d34a-cbdd-5861-8df4-14fed0d494ab"
-version = "0.14.2"
+version = "0.14.3"
 
 [[deps.NLSolversBase]]
 deps = ["DiffResults", "Distributed", "FiniteDiff", "ForwardDiff"]
@@ -870,9 +878,9 @@ version = "1.2.0"
 
 [[deps.Oceananigans]]
 deps = ["Adapt", "CUDA", "Crayons", "CubedSphere", "Dates", "Distances", "DocStringExtensions", "FFTW", "Glob", "IncompleteLU", "InteractiveUtils", "IterativeSolvers", "JLD2", "KernelAbstractions", "LinearAlgebra", "Logging", "MPI", "NCDatasets", "OffsetArrays", "OrderedCollections", "PencilArrays", "PencilFFTs", "Pkg", "Printf", "Random", "Rotations", "SeawaterPolynomials", "SparseArrays", "Statistics", "StructArrays"]
-git-tree-sha1 = "1910b8553f78cdd9a8496f51ea693b3adbd6b984"
+git-tree-sha1 = "4672af7242405313743af45168bfce3d87b84b2c"
 uuid = "9e8cae18-63c1-5223-a75c-80ca9d6e9a09"
-version = "0.90.9"
+version = "0.90.11"
 
     [deps.Oceananigans.extensions]
     OceananigansEnzymeExt = "Enzyme"
@@ -913,9 +921,9 @@ version = "4.1.6+0"
 
 [[deps.OpenSSL]]
 deps = ["BitFlags", "Dates", "MozillaCACerts_jll", "OpenSSL_jll", "Sockets"]
-git-tree-sha1 = "51901a49222b09e3743c65b8847687ae5fc78eb2"
+git-tree-sha1 = "af81a32750ebc831ee28bdaaba6e1067decef51e"
 uuid = "4d8831e6-92b7-49fb-bdf8-b643e874388c"
-version = "1.4.1"
+version = "1.4.2"
 
 [[deps.OpenSSL_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
@@ -930,10 +938,14 @@ uuid = "efe28fd5-8261-553b-a9e1-b2916fc3738e"
 version = "0.5.5+0"
 
 [[deps.Optim]]
-deps = ["Compat", "FillArrays", "ForwardDiff", "LineSearches", "LinearAlgebra", "MathOptInterface", "NLSolversBase", "NaNMath", "Parameters", "PositiveFactorizations", "Printf", "SparseArrays", "StatsBase"]
-git-tree-sha1 = "d024bfb56144d947d4fafcd9cb5cafbe3410b133"
+deps = ["Compat", "FillArrays", "ForwardDiff", "LineSearches", "LinearAlgebra", "NLSolversBase", "NaNMath", "PackageExtensionCompat", "Parameters", "PositiveFactorizations", "Printf", "SparseArrays", "StatsBase"]
+git-tree-sha1 = "d1223e69af90b6d26cea5b6f3b289b3148ba702c"
 uuid = "429524aa-4258-5aef-a3af-852621145aeb"
-version = "1.9.2"
+version = "1.9.3"
+weakdeps = ["MathOptInterface"]
+
+    [deps.Optim.extensions]
+    OptimMOIExt = "MathOptInterface"
 
 [[deps.OrderedCollections]]
 git-tree-sha1 = "dfdf5519f235516220579f949664f1bf44e741c5"
@@ -1015,15 +1027,15 @@ version = "0.2.4"
 
 [[deps.PrecompileTools]]
 deps = ["Preferences"]
-git-tree-sha1 = "03b4c25b43cb84cee5c90aa9b5ea0a78fd848d2f"
+git-tree-sha1 = "5aa36f7049a63a1528fe8f7c3f2113413ffd4e1f"
 uuid = "aea7be01-6a6a-4083-8856-8a6e6704d82a"
-version = "1.2.0"
+version = "1.2.1"
 
 [[deps.Preferences]]
 deps = ["TOML"]
-git-tree-sha1 = "00805cd429dcb4870060ff49ef443486c262e38e"
+git-tree-sha1 = "9306f6085165d270f7e3db02af26a400d580f5c6"
 uuid = "21216c6a-2e73-6563-6e65-726566657250"
-version = "1.4.1"
+version = "1.4.3"
 
 [[deps.PrettyTables]]
 deps = ["Crayons", "LaTeXStrings", "Markdown", "PrecompileTools", "Printf", "Reexport", "StringManipulation", "Tables"]
@@ -1047,9 +1059,9 @@ version = "1.5.1"
 
 [[deps.ProgressMeter]]
 deps = ["Distributed", "Printf"]
-git-tree-sha1 = "00099623ffee15972c16111bcf84c58a0051257c"
+git-tree-sha1 = "763a8ceb07833dd51bb9e3bbca372de32c0605ad"
 uuid = "92933f4c-e287-5a05-a399-4b506db050ca"
-version = "1.9.0"
+version = "1.10.0"
 
 [[deps.QuadGK]]
 deps = ["DataStructures", "LinearAlgebra"]
@@ -1379,9 +1391,9 @@ uuid = "a759f4b9-e2f1-59dc-863e-4aeb61b1ea8f"
 version = "0.5.23"
 
 [[deps.TranscodingStreams]]
-git-tree-sha1 = "54194d92959d8ebaa8e26227dbe3cdefcdcd594f"
+git-tree-sha1 = "a09c933bebed12501890d8e92946bbab6a1690f1"
 uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa"
-version = "0.10.3"
+version = "0.10.5"
 weakdeps = ["Random", "Test"]
 
     [deps.TranscodingStreams.extensions]
@@ -1433,9 +1445,9 @@ version = "2.12.5+0"
 
 [[deps.XZ_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "37195dcb94a5970397ad425b95a9a26d0befce3a"
+git-tree-sha1 = "31c421e5516a6248dfb22c194519e37effbf1f30"
 uuid = "ffd25f8a-64ca-5728-b0f7-c24cf3aae800"
-version = "5.6.0+0"
+version = "5.6.1+0"
 
 [[deps.Zlib_jll]]
 deps = ["Libdl"]