tag v0.28.2

NEWS.md

@@ -5,15 +5,19 @@ Main
 -------
 
 
-v0.28.1
+v0.28.2
 -------
 ### Features
 
 ### Add van Leer class operator
 
 Added a new vertical transport option `vanleer_limiter` (for tracer and energy variables)
-which uses methods described in Lin et al. (1994) to apply slope-limited upwinding. Adds 
-operator 
+which uses methods described in Lin et al. (1994) to apply slope-limited upwinding. Adds
+operator
+
+v0.28.1
+-------
+### Features
 
 ### Read initial conditions from NetCDF files
 

Project.toml

@@ -1,7 +1,7 @@
 name = "ClimaAtmos"
 uuid = "b2c96348-7fb7-4fe0-8da9-78d88439e717"
 authors = ["Climate Modeling Alliance"]
-version = "0.28.1"
+version = "0.28.2"
 
 [deps]
 ArgParse = "c7e460c6-2fb9-53a9-8c5b-16f535851c63"

docs/Manifest-v1.11.toml

@@ -37,24 +37,24 @@ uuid = "1520ce14-60c1-5f80-bbc7-55ef81b5835c"
 version = "0.4.5"
 
 [[deps.Accessors]]
-deps = ["CompositionsBase", "ConstructionBase", "InverseFunctions", "LinearAlgebra", "MacroTools", "Markdown"]
-git-tree-sha1 = "96bed9b1b57cf750cca50c311a197e306816a1cc"
+deps = ["CompositionsBase", "ConstructionBase", "Dates", "InverseFunctions", "MacroTools"]
+git-tree-sha1 = "0ba8f4c1f06707985ffb4804fdad1bf97b233897"
 uuid = "7d9f7c33-5ae7-4f3b-8dc6-eff91059b697"
-version = "0.1.39"
+version = "0.1.41"
 
     [deps.Accessors.extensions]
-    AccessorsAxisKeysExt = "AxisKeys"
-    AccessorsDatesExt = "Dates"
-    AccessorsIntervalSetsExt = "IntervalSets"
-    AccessorsStaticArraysExt = "StaticArrays"
-    AccessorsStructArraysExt = "StructArrays"
-    AccessorsTestExt = "Test"
-    AccessorsUnitfulExt = "Unitful"
+    AxisKeysExt = "AxisKeys"
+    IntervalSetsExt = "IntervalSets"
+    LinearAlgebraExt = "LinearAlgebra"
+    StaticArraysExt = "StaticArrays"
+    StructArraysExt = "StructArrays"
+    TestExt = "Test"
+    UnitfulExt = "Unitful"
 
     [deps.Accessors.weakdeps]
     AxisKeys = "94b1ba4f-4ee9-5380-92f1-94cde586c3c5"
-    Dates = "ade2ca70-3891-5945-98fb-dc099432e06a"
     IntervalSets = "8197267c-284f-5f27-9208-e0e47529a953"
+    LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
     Requires = "ae029012-a4dd-5104-9daa-d747884805df"
     StaticArrays = "90137ffa-7385-5640-81b9-e52037218182"
     StructArrays = "09ab397b-f2b6-538f-b94a-2f83cf4a842a"
@@ -257,9 +257,9 @@ version = "0.5.0"
 
 [[deps.CFTime]]
 deps = ["Dates", "Printf"]
-git-tree-sha1 = "5afb5c5ba2688ca43a9ad2e5a91cbb93921ccfa1"
+git-tree-sha1 = "937628bf8b377208ac359f57314fd85d3e0165d9"
 uuid = "179af706-886a-5703-950a-314cd64e0468"
-version = "0.1.3"
+version = "0.1.4"
 
 [[deps.CPUSummary]]
 deps = ["CpuId", "IfElse", "PrecompileTools", "Static"]
@@ -315,12 +315,13 @@ weakdeps = ["SparseArrays"]
 deps = ["ArgParse", "ArtifactWrappers", "Artifacts", "AtmosphericProfilesLibrary", "ClimaComms", "ClimaCore", "ClimaDiagnostics", "ClimaParams", "ClimaTimeSteppers", "ClimaUtilities", "CloudMicrophysics", "Dates", "DiffEqBase", "FastGaussQuadrature", "Insolation", "Interpolations", "LazyArtifacts", "LinearAlgebra", "Logging", "NCDatasets", "NVTX", "RRTMGP", "Random", "SciMLBase", "StaticArrays", "Statistics", "SurfaceFluxes", "Thermodynamics", "UnrolledUtilities", "YAML"]
 path = ".."
 uuid = "b2c96348-7fb7-4fe0-8da9-78d88439e717"
-version = "0.28.1"
+version = "0.28.2"
 
 [[deps.ClimaComms]]
-git-tree-sha1 = "ec303a4a66dc0a0ebe15a639a7e685afeaa0daef"
+deps = ["Adapt", "Logging", "LoggingExtras"]
+git-tree-sha1 = "d29ca07d91e6ca6c0a3649ad6cf37f2634951fd3"
 uuid = "3a4d1b5c-c61d-41fd-a00a-5873ba7a1b0d"
-version = "0.6.4"
+version = "0.6.5"
 
     [deps.ClimaComms.extensions]
     ClimaCommsCUDAExt = "CUDA"
@@ -402,9 +403,9 @@ version = "0.1.13"
 
 [[deps.CloudMicrophysics]]
 deps = ["ClimaParams", "DocStringExtensions", "ForwardDiff", "HCubature", "LazyArtifacts", "QuadGK", "RootSolvers", "SpecialFunctions", "Thermodynamics"]
-git-tree-sha1 = "e3b2ae212b68aea23d11c03300abb1268a56af87"
+git-tree-sha1 = "ce0a087e03585d89fa925ffdb18246309ad40e55"
 uuid = "6a9e3e04-43cd-43ba-94b9-e8782df3c71b"
-version = "0.22.5"
+version = "0.22.6"
 
     [deps.CloudMicrophysics.extensions]
     EmulatorModelsExt = ["DataFrames", "MLJ"]
@@ -420,10 +421,10 @@ uuid = "944b1d66-785c-5afd-91f1-9de20f533193"
 version = "0.7.6"
 
 [[deps.ColorBrewer]]
-deps = ["Colors", "JSON", "Test"]
-git-tree-sha1 = "61c5334f33d91e570e1d0c3eb5465835242582c4"
+deps = ["Colors", "JSON"]
+git-tree-sha1 = "e771a63cc8b539eca78c85b0cabd9233d6c8f06f"
 uuid = "a2cac450-b92f-5266-8821-25eda20663c8"
-version = "0.4.0"
+version = "0.4.1"
 
 [[deps.ColorSchemes]]
 deps = ["ColorTypes", "ColorVectorSpace", "Colors", "FixedPointNumbers", "PrecompileTools", "Random"]
@@ -538,9 +539,9 @@ version = "4.1.1"
 
 [[deps.CubedSphere]]
 deps = ["TaylorSeries"]
-git-tree-sha1 = "51bb25de518b4c62b7cdf26e5fbb84601bb27a60"
+git-tree-sha1 = "10874d1500159336863decaef665ab54805be29c"
 uuid = "7445602f-e544-4518-8976-18f8e8ae6cdb"
-version = "0.3.0"
+version = "0.3.1"
 
 [[deps.DataAPI]]
 git-tree-sha1 = "abe83f3a2f1b857aac70ef8b269080af17764bbe"
@@ -622,10 +623,10 @@ uuid = "b552c78f-8df3-52c6-915a-8e097449b14b"
 version = "1.15.1"
 
 [[deps.DiskArrays]]
-deps = ["LRUCache", "OffsetArrays"]
-git-tree-sha1 = "e0e89a60637a62d13aa2107f0acd169b9b9b77e7"
+deps = ["LRUCache", "Mmap", "OffsetArrays"]
+git-tree-sha1 = "90fc70a19edc4e59f22b2b9b8ad46e3d116c6aa7"
 uuid = "3c3547ce-8d99-4f5e-a174-61eb10b00ae3"
-version = "0.4.6"
+version = "0.4.7"
 
 [[deps.Distributed]]
 deps = ["Random", "Serialization", "Sockets"]
@@ -634,9 +635,9 @@ version = "1.11.0"
 
 [[deps.Distributions]]
 deps = ["AliasTables", "FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsAPI", "StatsBase", "StatsFuns"]
-git-tree-sha1 = "4b138e4643b577ccf355377c2bc70fa975af25de"
+git-tree-sha1 = "7901a6117656e29fa2c74a58adb682f380922c47"
 uuid = "31c24e10-a181-5473-b8eb-7969acd0382f"
-version = "0.25.115"
+version = "0.25.116"
 
     [deps.Distributions.extensions]
     DistributionsChainRulesCoreExt = "ChainRulesCore"
@@ -720,9 +721,9 @@ uuid = "6b7a57c9-7cc1-4fdf-b7f5-e857abae3636"
 version = "0.8.5"
 
 [[deps.Extents]]
-git-tree-sha1 = "81023caa0021a41712685887db1fc03db26f41f5"
+git-tree-sha1 = "063512a13dbe9c40d999c439268539aa552d1ae6"
 uuid = "411431e0-e8b7-467b-b5e0-f676ba4f2910"
-version = "0.1.4"
+version = "0.1.5"
 
 [[deps.FFMPEG_jll]]
 deps = ["Artifacts", "Bzip2_jll", "FreeType2_jll", "FriBidi_jll", "JLLWrappers", "LAME_jll", "Libdl", "Ogg_jll", "OpenSSL_jll", "Opus_jll", "PCRE2_jll", "Zlib_jll", "libaom_jll", "libass_jll", "libfdk_aac_jll", "libvorbis_jll", "x264_jll", "x265_jll"]
@@ -911,9 +912,9 @@ uuid = "d54b0c1a-921d-58e0-8e36-89d8069c0969"
 version = "0.5.8"
 
 [[deps.GeoFormatTypes]]
-git-tree-sha1 = "59107c179a586f0fe667024c5eb7033e81333271"
+git-tree-sha1 = "ce573eab15760315756de2c82df7406c870c7187"
 uuid = "68eda718-8dee-11e9-39e7-89f7f65f511f"
-version = "0.4.2"
+version = "0.4.3"
 
 [[deps.GeoInterface]]
 deps = ["DataAPI", "Extents", "GeoFormatTypes"]
@@ -1274,9 +1275,9 @@ weakdeps = ["Serialization"]
 
 [[deps.LZO_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "854a9c268c43b77b0a27f22d7fab8d33cdb3a731"
+git-tree-sha1 = "1c602b1127f4751facb671441ca72715cc95938a"
 uuid = "dd4b983a-f0e5-5f8d-a1b7-129d4a5fb1ac"
-version = "2.10.2+3"
+version = "2.10.3+0"
 
 [[deps.LaTeXStrings]]
 git-tree-sha1 = "dda21b8cbd6a6c40d9d02a73230f9d70fed6918c"
@@ -1359,15 +1360,15 @@ version = "1.51.1+0"
 
 [[deps.Libiconv_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "61dfdba58e585066d8bce214c5a51eaa0539f269"
+git-tree-sha1 = "be484f5c92fad0bd8acfef35fe017900b0b73809"
 uuid = "94ce4f54-9a6c-5748-9c1c-f9c7231a4531"
-version = "1.17.0+1"
+version = "1.18.0+0"
 
 [[deps.Libmount_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "84eef7acd508ee5b3e956a2ae51b05024181dee0"
+git-tree-sha1 = "89211ea35d9df5831fca5d33552c02bd33878419"
 uuid = "4b2f31a3-9ecc-558c-b454-b3730dcb73e9"
-version = "2.40.2+2"
+version = "2.40.3+0"
 
 [[deps.Libtiff_jll]]
 deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "LERC_jll", "Libdl", "XZ_jll", "Zlib_jll", "Zstd_jll"]
@@ -1377,9 +1378,9 @@ version = "4.7.1+0"
 
 [[deps.Libuuid_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "edbf5309f9ddf1cab25afc344b1e8150b7c832f9"
+git-tree-sha1 = "e888ad02ce716b319e6bdb985d2ef300e7089889"
 uuid = "38a345b3-de98-5d2b-a5d3-14cd9215e700"
-version = "2.40.2+2"
+version = "2.40.3+0"
 
 [[deps.LinearAlgebra]]
 deps = ["Libdl", "OpenBLAS_jll", "libblastrampoline_jll"]
@@ -1422,6 +1423,12 @@ version = "0.3.29"
 uuid = "56ddb016-857b-54e1-b83d-db4d58db5568"
 version = "1.11.0"
 
+[[deps.LoggingExtras]]
+deps = ["Dates", "Logging"]
+git-tree-sha1 = "f02b56007b064fbfddb4c9cd60161b6dd0f40df3"
+uuid = "e6f89c97-d47a-5376-807f-9c37f3926c36"
+version = "1.1.0"
+
 [[deps.Lz4_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
 git-tree-sha1 = "191686b1ac1ea9c89fc52e996ad15d1d241d1e33"
@@ -1458,10 +1465,9 @@ uuid = "f1f71cc9-e9ae-5b93-9b94-4fe0e1ad3748"
 version = "5.5.1+2"
 
 [[deps.MacroTools]]
-deps = ["Markdown", "Random"]
-git-tree-sha1 = "2fa9ee3e63fd3a4f7a9a4f4744a52f4856de82df"
+git-tree-sha1 = "72aebe0b5051e5143a079a4685a46da330a40472"
 uuid = "1914dd2f-81c6-5fcd-8719-6d5c9610ff09"
-version = "0.5.13"
+version = "0.5.15"
 
 [[deps.Makie]]
 deps = ["Animations", "Base64", "CRC32c", "ColorBrewer", "ColorSchemes", "ColorTypes", "Colors", "Contour", "Dates", "DelaunayTriangulation", "Distributions", "DocStringExtensions", "Downloads", "FFMPEG_jll", "FileIO", "FilePaths", "FixedPointNumbers", "Format", "FreeType", "FreeTypeAbstraction", "GeometryBasics", "GridLayoutBase", "ImageBase", "ImageIO", "InteractiveUtils", "Interpolations", "IntervalSets", "InverseFunctions", "Isoband", "KernelDensity", "LaTeXStrings", "LinearAlgebra", "MacroTools", "MakieCore", "Markdown", "MathTeXEngine", "Observables", "OffsetArrays", "Packing", "PlotUtils", "PolygonOps", "PrecompileTools", "Printf", "REPL", "Random", "RelocatableFolders", "Scratch", "ShaderAbstractions", "Showoff", "SignedDistanceFields", "SparseArrays", "Statistics", "StatsBase", "StatsFuns", "StructArrays", "TriplotBase", "UnicodeFun", "Unitful"]
@@ -1570,9 +1576,9 @@ version = "3.1.0+2"
 
 [[deps.NaNMath]]
 deps = ["OpenLibm_jll"]
-git-tree-sha1 = "0877504529a3e5c3343c6f8b4c0381e57e4387e4"
+git-tree-sha1 = "030ea22804ef91648f29b7ad3fc15fa49d0e6e71"
 uuid = "77ba4419-2d1f-58cd-9bb1-8ffee604a2e3"
-version = "1.0.2"
+version = "1.0.3"
 
 [[deps.NetCDF_jll]]
 deps = ["Artifacts", "Blosc_jll", "Bzip2_jll", "HDF5_jll", "JLLWrappers", "LibCURL_jll", "Libdl", "OpenMPI_jll", "XML2_jll", "Zlib_jll", "Zstd_jll", "libzip_jll"]
@@ -1800,9 +1806,9 @@ uuid = "92933f4c-e287-5a05-a399-4b506db050ca"
 version = "1.10.2"
 
 [[deps.PtrArrays]]
-git-tree-sha1 = "77a42d78b6a92df47ab37e177b2deac405e1c88f"
+git-tree-sha1 = "1d36ef11a9aaf1e8b74dacc6a731dd1de8fd493d"
 uuid = "43287f4e-b6f4-7ad1-bb20-aadabca52c3d"
-version = "1.2.1"
+version = "1.3.0"
 
 [[deps.QOI]]
 deps = ["ColorTypes", "FileIO", "FixedPointNumbers"]
@@ -1953,9 +1959,9 @@ version = "0.7.0"
 
 [[deps.SIMD]]
 deps = ["PrecompileTools"]
-git-tree-sha1 = "52af86e35dd1b177d051b12681e1c581f53c281b"
+git-tree-sha1 = "fea870727142270bdf7624ad675901a1ee3b4c87"
 uuid = "fdea26ae-647d-5447-a871-4b548cad5224"
-version = "3.7.0"
+version = "3.7.1"
 
 [[deps.SIMDTypes]]
 git-tree-sha1 = "330289636fb8107c5f32088d2741e9fd7a061a5c"
@@ -1964,9 +1970,9 @@ version = "0.1.0"
 
 [[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"]
-git-tree-sha1 = "3e5a9c5d6432b77a271646b4ada2573f239ac5c4"
+git-tree-sha1 = "a263684f4134d50fe1863184281cc04a787a96a2"
 uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462"
-version = "2.70.0"
+version = "2.71.0"
 
     [deps.SciMLBase.extensions]
     SciMLBaseChainRulesCoreExt = "ChainRulesCore"
@@ -2254,9 +2260,9 @@ version = "1.10.0"
 
 [[deps.TaylorSeries]]
 deps = ["LinearAlgebra", "Markdown", "Requires", "SparseArrays"]
-git-tree-sha1 = "90c9bc500f4c5cdd235c81503ec91b2048f06423"
+git-tree-sha1 = "267e579c6aa0e1605bb5dc681996bb1e3a43c740"
 uuid = "6aa5eb33-94cf-58f4-a9d0-e4b2c4fc25ea"
-version = "0.17.8"
+version = "0.18.2"
 
     [deps.TaylorSeries.extensions]
     TaylorSeriesIAExt = "IntervalArithmetic"
@@ -2441,15 +2447,15 @@ version = "1.8.6+3"
 
 [[deps.Xorg_libXau_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "2b0e27d52ec9d8d483e2ca0b72b3cb1a8df5c27a"
+git-tree-sha1 = "e9216fdcd8514b7072b43653874fd688e4c6c003"
 uuid = "0c0b7dd1-d40b-584c-a123-a41640f87eec"
-version = "1.0.11+3"
+version = "1.0.12+0"
 
 [[deps.Xorg_libXdmcp_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "02054ee01980c90297412e4c809c8694d7323af3"
+git-tree-sha1 = "89799ae67c17caa5b3b5a19b8469eeee474377db"
 uuid = "a3789734-cfe1-5b06-b2d0-1dd0d9d62d05"
-version = "1.1.4+3"
+version = "1.1.5+0"
 
 [[deps.Xorg_libXext_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libX11_jll"]
@@ -2465,9 +2471,9 @@ version = "0.9.11+1"
 
 [[deps.Xorg_libpthread_stubs_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "fee57a273563e273f0f53275101cd41a8153517a"
+git-tree-sha1 = "c57201109a9e4c0585b208bb408bc41d205ac4e9"
 uuid = "14d82f49-176c-5ed1-bb49-ad3f5cbd8c74"
-version = "0.1.1+3"
+version = "0.1.2+0"
 
 [[deps.Xorg_libxcb_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl", "XSLT_jll", "Xorg_libXau_jll", "Xorg_libXdmcp_jll", "Xorg_libpthread_stubs_jll"]
@@ -2477,9 +2483,9 @@ version = "1.17.0+3"
 
 [[deps.Xorg_xtrans_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "b9ead2d2bdb27330545eb14234a2e300da61232e"
+git-tree-sha1 = "6dba04dbfb72ae3ebe5418ba33d087ba8aa8cb00"
 uuid = "c5fb5394-a638-5e4d-96e5-b29de1b5cf10"
-version = "1.5.0+3"
+version = "1.5.1+0"
 
 [[deps.YAML]]
 deps = ["Base64", "Dates", "Printf", "StringEncodings"]
@@ -2506,9 +2512,9 @@ version = "0.2.3+0"
 
 [[deps.libaec_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
-git-tree-sha1 = "46bf7be2917b59b761247be3f317ddf75e50e997"
+git-tree-sha1 = "f5733a5a9047722470b95a81e1b172383971105c"
 uuid = "477f73a3-ac25-53e9-8cc3-50b2fa2566f0"
-version = "1.1.2+2"
+version = "1.1.3+0"
 
 [[deps.libaom_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl"]
@@ -2535,15 +2541,15 @@ version = "2.0.3+0"
 
 [[deps.libpng_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl", "Zlib_jll"]
-git-tree-sha1 = "b7bfd3ab9d2c58c3829684142f5804e4c6499abc"
+git-tree-sha1 = "d7b5bbf1efbafb5eca466700949625e07533aff2"
 uuid = "b53b4c65-9356-5827-b1ea-8c7a1a84506f"
-version = "1.6.45+0"
+version = "1.6.45+1"
 
 [[deps.libsixel_jll]]
 deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "Libdl", "libpng_jll"]
-git-tree-sha1 = "1e53ffe8941ee486739f3c0cf11208c26637becd"
+git-tree-sha1 = "c1733e347283df07689d71d61e14be986e49e47a"
 uuid = "075b6546-f08a-558a-be8f-8157d0f608a5"
-version = "1.10.4+0"
+version = "1.10.5+0"
 
 [[deps.libvorbis_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl", "Ogg_jll", "Pkg"]