Merge pull request #536 from CliMA/gb/try_deprecated

Update to ClimaCore 0.13

Project.toml

@@ -42,7 +42,7 @@ ClimaParams = "0.10"
 CSV = "0.10"
 CUDA = "5"
 ClimaComms = "0.5.6"
-ClimaCore = "0.12"
+ClimaCore = "0.12, 0.13"
 ClimaCoreTempestRemap = "0.3"
 DataFrames = "1"
 Dates = "1"

docs/Manifest.toml

@@ -38,9 +38,9 @@ version = "0.4.5"
 
 [[deps.Adapt]]
 deps = ["LinearAlgebra", "Requires"]
-git-tree-sha1 = "0fb305e0253fd4e833d486914367a2ee2c2e78d0"
+git-tree-sha1 = "e2a9873379849ce2ac9f9fa34b0e37bde5d5fe0a"
 uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"
-version = "4.0.1"
+version = "4.0.2"
 weakdeps = ["StaticArrays"]
 
     [deps.Adapt.extensions]
@@ -57,15 +57,16 @@ version = "1.1.1"
 
 [[deps.ArrayInterface]]
 deps = ["Adapt", "LinearAlgebra", "Requires", "SparseArrays", "SuiteSparse"]
-git-tree-sha1 = "c5aeb516a84459e0318a02507d2261edad97eb75"
+git-tree-sha1 = "881e43f1aa014a6f75c8fc0847860e00a1500846"
 uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9"
-version = "7.7.1"
+version = "7.8.0"
 
     [deps.ArrayInterface.extensions]
     ArrayInterfaceBandedMatricesExt = "BandedMatrices"
     ArrayInterfaceBlockBandedMatricesExt = "BlockBandedMatrices"
     ArrayInterfaceCUDAExt = "CUDA"
     ArrayInterfaceGPUArraysCoreExt = "GPUArraysCore"
+    ArrayInterfaceReverseDiffExt = "ReverseDiff"
     ArrayInterfaceStaticArraysCoreExt = "StaticArraysCore"
     ArrayInterfaceTrackerExt = "Tracker"
 
@@ -74,14 +75,15 @@ version = "7.7.1"
     BlockBandedMatrices = "ffab5731-97b5-5995-9138-79e8c1846df0"
     CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba"
     GPUArraysCore = "46192b85-c4d5-4398-a991-12ede77f4527"
+    ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267"
     StaticArraysCore = "1e83bf80-4336-4d27-bf5d-d5a4f845583c"
     Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c"
 
 [[deps.ArrayLayouts]]
 deps = ["FillArrays", "LinearAlgebra"]
-git-tree-sha1 = "64d582bcb9c93ac741234789eeb4f16812413efb"
+git-tree-sha1 = "e46675dbc095ddfdf2b5fba247d5a25f34e1f8a2"
 uuid = "4c555306-a7a7-4459-81d9-ec55ddd5c99a"
-version = "1.6.0"
+version = "1.6.1"
 weakdeps = ["SparseArrays"]
 
     [deps.ArrayLayouts.extensions]
@@ -200,9 +202,9 @@ version = "0.2.4"
 
 [[deps.CSV]]
 deps = ["CodecZlib", "Dates", "FilePathsBase", "InlineStrings", "Mmap", "Parsers", "PooledArrays", "PrecompileTools", "SentinelArrays", "Tables", "Unicode", "WeakRefStrings", "WorkerUtilities"]
-git-tree-sha1 = "679e69c611fff422038e9e21e270c4197d49d918"
+git-tree-sha1 = "a44910ceb69b0d44fe262dd451ab11ead3ed0be8"
 uuid = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b"
-version = "0.10.12"
+version = "0.10.13"
 
 [[deps.CUDA]]
 deps = ["AbstractFFTs", "Adapt", "BFloat16s", "CEnum", "CUDA_Driver_jll", "CUDA_Runtime_Discovery", "CUDA_Runtime_jll", "Crayons", "DataFrames", "ExprTools", "GPUArrays", "GPUCompiler", "KernelAbstractions", "LLVM", "LLVMLoopInfo", "LazyArtifacts", "Libdl", "LinearAlgebra", "Logging", "NVTX", "Preferences", "PrettyTables", "Printf", "Random", "Random123", "RandomNumbers", "Reexport", "Requires", "SparseArrays", "StaticArrays", "Statistics"]
@@ -253,9 +255,9 @@ version = "1.63.0"
 
 [[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]
@@ -269,19 +271,19 @@ version = "0.5.7"
 
 [[deps.ClimaCore]]
 deps = ["Adapt", "BandedMatrices", "BlockArrays", "CUDA", "ClimaComms", "CubedSphere", "DataStructures", "DocStringExtensions", "ForwardDiff", "GaussQuadrature", "GilbertCurves", "HDF5", "InteractiveUtils", "IntervalSets", "KrylovKit", "LinearAlgebra", "PkgVersion", "RecursiveArrayTools", "RootSolvers", "SparseArrays", "Static", "StaticArrays", "Statistics", "Unrolled"]
-git-tree-sha1 = "fd3bb1f7655ebcc8c8a652a8cc6c4f7f2620ae72"
+git-tree-sha1 = "015898159f05bfa6075cbec6790fff4efea16aa5"
 uuid = "d414da3d-4745-48bb-8d80-42e94e092884"
-version = "0.12.1"
+version = "0.13.0"
 weakdeps = ["Krylov"]
 
     [deps.ClimaCore.extensions]
     KrylovExt = "Krylov"
 
 [[deps.ClimaCoreTempestRemap]]
 deps = ["ClimaComms", "ClimaCore", "CommonDataModel", "Dates", "LinearAlgebra", "NCDatasets", "PkgVersion", "TempestRemap_jll"]
-git-tree-sha1 = "2267e018c34f44fa8300b8d550d59f3eecef6094"
+git-tree-sha1 = "ac11cc8ad2c043ab753d6888c224c7e2f35f42c0"
 uuid = "d934ef94-cdd4-4710-83d6-720549644b70"
-version = "0.3.13"
+version = "0.3.14"
 
 [[deps.ClimaLand]]
 deps = ["Adapt", "ArtifactWrappers", "CFTime", "CSV", "CUDA", "ClimaComms", "ClimaCore", "ClimaCoreTempestRemap", "DataFrames", "Dates", "DocStringExtensions", "Flux", "HTTP", "Insolation", "IntervalSets", "LinearAlgebra", "NCDatasets", "SciMLBase", "StaticArrays", "StatsBase", "SurfaceFluxes", "Thermodynamics", "cuDNN"]
@@ -301,9 +303,9 @@ version = "0.10.1"
 
 [[deps.ClimaTimeSteppers]]
 deps = ["ClimaComms", "Colors", "DataStructures", "DiffEqBase", "DiffEqCallbacks", "KernelAbstractions", "Krylov", "LinearAlgebra", "LinearOperators", "NVTX", "SciMLBase", "StaticArrays"]
-git-tree-sha1 = "96bbba6d14467a2b9512ba0a536395350bb361ff"
+git-tree-sha1 = "9c203f39784c968700c55f555754a7771b3410df"
 uuid = "595c0a79-7f3d-439a-bc5a-b232dc3bde79"
-version = "0.7.17"
+version = "0.7.19"
 
 [[deps.CloseOpenIntervals]]
 deps = ["Static", "StaticArrayInterface"]
@@ -446,9 +448,9 @@ 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"
@@ -472,9 +474,9 @@ version = "1.9.1"
 
 [[deps.DiffEqBase]]
 deps = ["ArrayInterface", "DataStructures", "DocStringExtensions", "EnumX", "EnzymeCore", "FastBroadcast", "ForwardDiff", "FunctionWrappers", "FunctionWrappersWrappers", "LinearAlgebra", "Logging", "Markdown", "MuladdMacro", "Parameters", "PreallocationTools", "PrecompileTools", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SciMLOperators", "Setfield", "SparseArrays", "Static", "StaticArraysCore", "Statistics", "Tricks", "TruncatedStacktraces"]
-git-tree-sha1 = "2ad3a2dcd5f28f535aa884d199cc2f0a9d335729"
+git-tree-sha1 = "b19b2bb1ecd1271334e4b25d605e50f75e68fcae"
 uuid = "2b5f629d-d688-5b77-993f-72d75c75574e"
-version = "6.147.1"
+version = "6.148.0"
 
     [deps.DiffEqBase.extensions]
     DiffEqBaseChainRulesCoreExt = "ChainRulesCore"
@@ -550,10 +552,10 @@ uuid = "ffbed154-4ef7-542d-bbb7-c09d3a79fcae"
 version = "0.9.3"
 
 [[deps.Documenter]]
-deps = ["ANSIColoredPrinters", "AbstractTrees", "Base64", "Dates", "DocStringExtensions", "Downloads", "Git", "IOCapture", "InteractiveUtils", "JSON", "LibGit2", "Logging", "Markdown", "MarkdownAST", "Pkg", "PrecompileTools", "REPL", "RegistryInstances", "SHA", "Test", "Unicode"]
-git-tree-sha1 = "2613dbec8f4748273bbe30ba71fd5cb369966bac"
+deps = ["ANSIColoredPrinters", "AbstractTrees", "Base64", "CodecZlib", "Dates", "DocStringExtensions", "Downloads", "Git", "IOCapture", "InteractiveUtils", "JSON", "LibGit2", "Logging", "Markdown", "MarkdownAST", "Pkg", "PrecompileTools", "REPL", "RegistryInstances", "SHA", "TOML", "Test", "Unicode"]
+git-tree-sha1 = "4a40af50e8b24333b9ec6892546d9ca5724228eb"
 uuid = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
-version = "1.2.1"
+version = "1.3.0"
 
 [[deps.Downloads]]
 deps = ["ArgTools", "FileWatching", "LibCURL", "NetworkOptions"]
@@ -720,6 +722,11 @@ git-tree-sha1 = "21efd19106a55620a188615da6d3d06cd7f6ee03"
 uuid = "a3f928ae-7b40-5064-980b-68af3947d34b"
 version = "2.13.93+0"
 
+[[deps.Format]]
+git-tree-sha1 = "f3cf88025f6d03c194d73f5d13fee9004a108329"
+uuid = "1fa38f19-a742-5d3f-a2b9-30dd87b9d5f8"
+version = "1.3.6"
+
 [[deps.Formatting]]
 deps = ["Logging", "Printf"]
 git-tree-sha1 = "fb409abab2caf118986fc597ba84b50cbaf00b87"
@@ -880,9 +887,9 @@ 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 = "db864f2d91f68a5912937af80327d288ea1f3aee"
 uuid = "cd3eb016-35fb-5094-929b-558a96fad6f3"
-version = "1.10.2"
+version = "1.10.3"
 
 [[deps.HarfBuzz_jll]]
 deps = ["Artifacts", "Cairo_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "Graphite2_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Pkg"]
@@ -1018,9 +1025,9 @@ version = "0.2.4"
 
 [[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"
 weakdeps = ["EnzymeCore"]
 
     [deps.KernelAbstractions.extensions]
@@ -1104,10 +1111,10 @@ uuid = "b964fa9f-0449-5b57-a5c2-d3ea65f4040f"
 version = "1.3.1"
 
 [[deps.Latexify]]
-deps = ["Formatting", "InteractiveUtils", "LaTeXStrings", "MacroTools", "Markdown", "OrderedCollections", "Printf", "Requires"]
-git-tree-sha1 = "f428ae552340899a935973270b8d98e5a31c49fe"
+deps = ["Format", "InteractiveUtils", "LaTeXStrings", "MacroTools", "Markdown", "OrderedCollections", "Requires"]
+git-tree-sha1 = "cad560042a7cc108f5a4c24ea1431a9221f22c1b"
 uuid = "23fbe1c1-3f47-55db-b15f-69d7ec21a316"
-version = "0.16.1"
+version = "0.16.2"
 
     [deps.Latexify.extensions]
     DataFramesExt = "DataFrames"
@@ -1501,9 +1508,9 @@ 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"]
@@ -1587,9 +1594,9 @@ version = "3.1.0"
 
 [[deps.PlotUtils]]
 deps = ["ColorSchemes", "Colors", "Dates", "PrecompileTools", "Printf", "Random", "Reexport", "Statistics"]
-git-tree-sha1 = "862942baf5663da528f66d24996eb6da85218e76"
+git-tree-sha1 = "7b1a9df27f072ac4c9c7cbe5efb198489258d1f5"
 uuid = "995b91a9-d308-5afd-9ec6-746e21dbc043"
-version = "1.4.0"
+version = "1.4.1"
 
 [[deps.Plots]]
 deps = ["Base64", "Contour", "Dates", "Downloads", "FFMPEG", "FixedPointNumbers", "GR", "JLFzf", "JSON", "LaTeXStrings", "Latexify", "LinearAlgebra", "Measures", "NaNMath", "Pkg", "PlotThemes", "PlotUtils", "PrecompileTools", "Printf", "REPL", "Random", "RecipesBase", "RecipesPipeline", "Reexport", "RelocatableFolders", "Requires", "Scratch", "Showoff", "SparseArrays", "Statistics", "StatsBase", "UUIDs", "UnicodeFun", "UnitfulLatexify", "Unzip"]
@@ -1649,9 +1656,9 @@ version = "1.2.0"
 
 [[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.PrettyPrint]]
 git-tree-sha1 = "632eb4abab3449ab30c5e1afaa874f0b98b586e4"
@@ -2067,9 +2074,9 @@ uuid = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
 
 [[deps.Thermodynamics]]
 deps = ["DocStringExtensions", "KernelAbstractions", "Random", "RootSolvers"]
-git-tree-sha1 = "a539e258008ed9275a91e0a374aa1d073e80e2bf"
+git-tree-sha1 = "6098c65a2ad62312ac74cb1627c8fb33efe33287"
 uuid = "b60c26fb-14c3-4610-9d3e-2d17fe7ff00c"
-version = "0.12.4"
+version = "0.12.5"
 weakdeps = ["ClimaParams"]
 
     [deps.Thermodynamics.extensions]
@@ -2088,9 +2095,9 @@ uuid = "a759f4b9-e2f1-59dc-863e-4aeb61b1ea8f"
 version = "0.5.23"
 
 [[deps.TranscodingStreams]]
-git-tree-sha1 = "54194d92959d8ebaa8e26227dbe3cdefcdcd594f"
+git-tree-sha1 = "3caa21522e7efac1ba21834a03734c57b4611c7e"
 uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa"
-version = "0.10.3"
+version = "0.10.4"
 weakdeps = ["Random", "Test"]
 
     [deps.TranscodingStreams.extensions]