Merge pull request #1634 from CliMA/gb/release

Bump to 0.13
CliMA · Mar 5, 2024 · 353198d · 353198d · Sbozzolo · Mar 5, 2024
2 parents 152dd5c + 8f1f0fe
commit 353198d
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diff --git a/.dev/Manifest.toml b/.dev/Manifest.toml
@@ -1,6 +1,6 @@
 # This file is machine-generated - editing it directly is not advised
 
-julia_version = "1.9.3"
+julia_version = "1.10.0"
 manifest_format = "2.0"
 project_hash = "30b405be1c677184b7703a9bfb3d2100029ccad0"
 
@@ -16,9 +16,9 @@ uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f"
 
 [[deps.CSTParser]]
 deps = ["Tokenize"]
-git-tree-sha1 = "3ddd48d200eb8ddf9cb3e0189fc059fd49b97c1f"
+git-tree-sha1 = "b544d62417a99d091c569b95109bc9d8c223e9e3"
 uuid = "00ebfdb7-1f24-5e51-bd34-a7502290713f"
-version = "3.3.6"
+version = "3.4.2"
 
 [[deps.CommonMark]]
 deps = ["Crayons", "JSON", "PrecompileTools", "URIs"]
@@ -27,10 +27,10 @@ uuid = "a80b9123-70ca-4bc0-993e-6e3bcb318db6"
 version = "0.8.12"
 
 [[deps.Compat]]
-deps = ["UUIDs"]
-git-tree-sha1 = "8a62af3e248a8c4bad6b32cbbe663ae02275e32c"
+deps = ["TOML", "UUIDs"]
+git-tree-sha1 = "c955881e3c981181362ae4088b35995446298b80"
 uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
-version = "4.10.0"
+version = "4.14.0"
 
     [deps.Compat.extensions]
     CompatLinearAlgebraExt = "LinearAlgebra"
@@ -46,9 +46,9 @@ version = "4.1.1"
 
 [[deps.DataStructures]]
 deps = ["Compat", "InteractiveUtils", "OrderedCollections"]
-git-tree-sha1 = "3dbd312d370723b6bb43ba9d02fc36abade4518d"
+git-tree-sha1 = "0f4b5d62a88d8f59003e43c25a8a90de9eb76317"
 uuid = "864edb3b-99cc-5e75-8d2d-829cb0a9cfe8"
-version = "0.18.15"
+version = "0.18.18"
 
 [[deps.Dates]]
 deps = ["Printf"]
@@ -79,28 +79,33 @@ version = "0.21.4"
 
 [[deps.JuliaFormatter]]
 deps = ["CSTParser", "CommonMark", "DataStructures", "Glob", "Pkg", "PrecompileTools", "Tokenize"]
-git-tree-sha1 = "3d5b5b539e4606dcca0e6a467b98a64c8da4850b"
+git-tree-sha1 = "69f24e5b6ba669da8690ab294b78dd04dde5c6df"
 uuid = "98e50ef6-434e-11e9-1051-2b60c6c9e899"
-version = "1.0.42"
+version = "1.0.51"
 
 [[deps.LibCURL]]
 deps = ["LibCURL_jll", "MozillaCACerts_jll"]
 uuid = "b27032c2-a3e7-50c8-80cd-2d36dbcbfd21"
-version = "0.6.3"
+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 = "7.84.0+0"
+version = "8.4.0+0"
 
 [[deps.LibGit2]]
-deps = ["Base64", "NetworkOptions", "Printf", "SHA"]
+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 = "1.10.2+0"
+version = "1.11.0+1"
 
 [[deps.Libdl]]
 uuid = "8f399da3-3557-5675-b5ff-fb832c97cbdb"
@@ -115,34 +120,34 @@ uuid = "d6f4376e-aef5-505a-96c1-9c027394607a"
 [[deps.MbedTLS_jll]]
 deps = ["Artifacts", "Libdl"]
 uuid = "c8ffd9c3-330d-5841-b78e-0817d7145fa1"
-version = "2.28.2+0"
+version = "2.28.2+1"
 
 [[deps.Mmap]]
 uuid = "a63ad114-7e13-5084-954f-fe012c677804"
 
 [[deps.MozillaCACerts_jll]]
 uuid = "14a3606d-f60d-562e-9121-12d972cd8159"
-version = "2022.10.11"
+version = "2023.1.10"
 
 [[deps.NetworkOptions]]
 uuid = "ca575930-c2e3-43a9-ace4-1e988b2c1908"
 version = "1.2.0"
 
 [[deps.OrderedCollections]]
-git-tree-sha1 = "2e73fe17cac3c62ad1aebe70d44c963c3cfdc3e3"
+git-tree-sha1 = "dfdf5519f235516220579f949664f1bf44e741c5"
 uuid = "bac558e1-5e72-5ebc-8fee-abe8a469f55d"
-version = "1.6.2"
+version = "1.6.3"
 
 [[deps.Parsers]]
 deps = ["Dates", "PrecompileTools", "UUIDs"]
-git-tree-sha1 = "a935806434c9d4c506ba941871b327b96d41f2bf"
+git-tree-sha1 = "8489905bcdbcfac64d1daa51ca07c0d8f0283821"
 uuid = "69de0a69-1ddd-5017-9359-2bf0b02dc9f0"
-version = "2.8.0"
+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 = "1.9.2"
+version = "1.10.0"
 
 [[deps.PrecompileTools]]
 deps = ["Preferences"]
@@ -152,9 +157,9 @@ 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.Printf]]
 deps = ["Unicode"]
@@ -165,7 +170,7 @@ deps = ["InteractiveUtils", "Markdown", "Sockets", "Unicode"]
 uuid = "3fa0cd96-eef1-5676-8a61-b3b8758bbffb"
 
 [[deps.Random]]
-deps = ["SHA", "Serialization"]
+deps = ["SHA"]
 uuid = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"
 
 [[deps.SHA]]
@@ -189,9 +194,9 @@ uuid = "a4e569a6-e804-4fa4-b0f3-eef7a1d5b13e"
 version = "1.10.0"
 
 [[deps.Tokenize]]
-git-tree-sha1 = "0454d9a9bad2400c7ccad19ca832a2ef5a8bc3a1"
+git-tree-sha1 = "5b5a892ba7704c0977013bd0f9c30f5d962181e0"
 uuid = "0796e94c-ce3b-5d07-9a54-7f471281c624"
-version = "0.5.26"
+version = "0.5.28"
 
 [[deps.URIs]]
 git-tree-sha1 = "67db6cc7b3821e19ebe75791a9dd19c9b1188f2b"
@@ -208,14 +213,14 @@ uuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5"
 [[deps.Zlib_jll]]
 deps = ["Libdl"]
 uuid = "83775a58-1f1d-513f-b197-d71354ab007a"
-version = "1.2.13+0"
+version = "1.2.13+1"
 
 [[deps.nghttp2_jll]]
 deps = ["Artifacts", "Libdl"]
 uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d"
-version = "1.48.0+0"
+version = "1.52.0+1"
 
 [[deps.p7zip_jll]]
 deps = ["Artifacts", "Libdl"]
 uuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0"
-version = "17.4.0+0"
+version = "17.4.0+2"
diff --git a/NEWS.md b/NEWS.md
@@ -1,10 +1,12 @@
 ClimaCore.jl Release Notes
 ========================
 
-Main
+v0.13.0
 -------
 - ![][badge-💥breaking] support for many deprecated methods have been dropped PR [#1632](https://github.com/CliMA/ClimaCore.jl/pull/1632).
 - ![][badge-🤖precisionΔ]![][badge-🚀performance] Slight performance improvement by replacing `rdiv` with `rmul`. PR ([#1496](https://github.com/CliMA/ClimaCore.jl/pull/1496)) Machine-precision differences are expected.
+- ![][badge-💥breaking]![][badge-🚀performance] Rewritten `distributed_remapping`. New `distributed_remapping` is non-allocating and up to 1000x faster (on GPUs). New `distributed_remapping` no longer supports the `physical_z` argument (this option is still available in `Remapping.interpolate_column`). New `interpolate!` function is available for remapping in-place. The new preferred way to define a `Rampper` is `Remapper(space, target_hcoords, target_zcoords)` (instead of `Remapper(target_hcoords, target_zcoords, space)`).
+  PR ([#1630](https://github.com/CliMA/ClimaCore.jl/pull/1630))
 
 v0.12.1
 -------

diff --git a/Project.toml b/Project.toml
@@ -1,7 +1,7 @@
 name = "ClimaCore"
 uuid = "d414da3d-4745-48bb-8d80-42e94e092884"
 authors = ["CliMA Contributors <[email protected]>"]
-version = "0.12.1"
+version = "0.13.0"
 
 [deps]
 Adapt = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"

diff --git a/benchmarks/bickleyjet/Manifest.toml b/benchmarks/bickleyjet/Manifest.toml
@@ -31,15 +31,16 @@ 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"
 
@@ -48,14 +49,15 @@ 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]
@@ -172,7 +174,7 @@ version = "0.5.7"
 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"]
 path = "../.."
 uuid = "d414da3d-4745-48bb-8d80-42e94e092884"
-version = "0.12.1"
+version = "0.13.0"
 
     [deps.ClimaCore.extensions]
     KrylovExt = "Krylov"
@@ -270,9 +272,9 @@ 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"
@@ -399,11 +401,10 @@ git-tree-sha1 = "21efd19106a55620a188615da6d3d06cd7f6ee03"
 uuid = "a3f928ae-7b40-5064-980b-68af3947d34b"
 version = "2.13.93+0"
 
-[[deps.Formatting]]
-deps = ["Logging", "Printf"]
-git-tree-sha1 = "fb409abab2caf118986fc597ba84b50cbaf00b87"
-uuid = "59287772-0a20-5a39-b81b-1366585eb4c0"
-version = "0.4.3"
+[[deps.Format]]
+git-tree-sha1 = "f3cf88025f6d03c194d73f5d13fee9004a108329"
+uuid = "1fa38f19-a742-5d3f-a2b9-30dd87b9d5f8"
+version = "1.3.6"
 
 [[deps.ForwardDiff]]
 deps = ["CommonSubexpressions", "DiffResults", "DiffRules", "LinearAlgebra", "LogExpFunctions", "NaNMath", "Preferences", "Printf", "Random", "SpecialFunctions"]
@@ -519,9 +520,9 @@ 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"]
@@ -614,9 +615,9 @@ 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"
@@ -681,10 +682,10 @@ 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"
@@ -931,9 +932,9 @@ 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"]
@@ -999,9 +1000,9 @@ 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"]
@@ -1037,9 +1038,9 @@ version = "1.2.0"
 
 [[deps.Preferences]]
 deps = ["TOML"]
-git-tree-sha1 = "9e8fed0505b0c15b4c1295fd59ea47b411c019cf"
+git-tree-sha1 = "9306f6085165d270f7e3db02af26a400d580f5c6"
 uuid = "21216c6a-2e73-6563-6e65-726566657250"
-version = "1.4.2"
+version = "1.4.3"
 
 [[deps.PrettyTables]]
 deps = ["Crayons", "LaTeXStrings", "Markdown", "PrecompileTools", "Printf", "Reexport", "StringManipulation", "Tables"]
@@ -1310,9 +1311,9 @@ 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]