Merge pull request #4087 from CliMA/js/v0318

tag v0.31.8

Author: juliasloan25

.buildkite/Manifest-v1.11.toml

@@ -232,9 +232,9 @@ version = "0.1.6"
 
 [[deps.BlockArrays]]
 deps = ["ArrayLayouts", "FillArrays", "LinearAlgebra"]
-git-tree-sha1 = "f3132231bfb207e2793aa4f5f933f39c38d2cd60"
+git-tree-sha1 = "bdbfd88331c322502bcf2c368a71fea773333f1d"
 uuid = "8e7c35d0-a365-5155-bbbb-fb81a777f24e"
-version = "1.9.0"
+version = "1.9.1"
 weakdeps = ["Adapt", "BandedMatrices"]
 
     [deps.BlockArrays.extensions]
@@ -391,7 +391,7 @@ version = "0.5.20"
 deps = ["Adapt", "ArgParse", "Artifacts", "AtmosphericProfilesLibrary", "ClimaComms", "ClimaCore", "ClimaDiagnostics", "ClimaInterpolations", "ClimaParams", "ClimaTimeSteppers", "ClimaUtilities", "CloudMicrophysics", "Dates", "ForwardDiff", "Insolation", "Interpolations", "LazyArtifacts", "LazyBroadcast", "LinearAlgebra", "Logging", "NCDatasets", "NVTX", "NullBroadcasts", "RRTMGP", "Random", "SciMLBase", "SparseMatrixColorings", "StaticArrays", "Statistics", "SurfaceFluxes", "Thermodynamics", "UnrolledUtilities", "YAML"]
 path = ".."
 uuid = "b2c96348-7fb7-4fe0-8da9-78d88439e717"
-version = "0.31.7"
+version = "0.31.8"
 
 [[deps.ClimaComms]]
 deps = ["Adapt", "Logging", "LoggingExtras"]
@@ -445,9 +445,9 @@ weakdeps = ["CUDA"]
 
 [[deps.ClimaParams]]
 deps = ["Dates", "TOML"]
-git-tree-sha1 = "d2381a8307acf02a94f62e0af39929e0b53f531c"
+git-tree-sha1 = "995991392b8bf4c8400b38ba5bcb7d3a0e7d9cce"
 uuid = "5c42b081-d73a-476f-9059-fd94b934656c"
-version = "1.0.2"
+version = "1.0.3"
 
 [[deps.ClimaReproducibilityTests]]
 deps = ["OrderedCollections", "PrettyTables"]
@@ -467,9 +467,9 @@ weakdeps = ["BenchmarkTools", "CUDA", "OrderedCollections", "PrettyTables", "Sta
 
 [[deps.ClimaUtilities]]
 deps = ["Artifacts", "ClimaComms", "Dates"]
-git-tree-sha1 = "fe1a7b3143f11c017118d3c99f067a09cb622f81"
+git-tree-sha1 = "aee2df21560e89382f6290bf0ea34c7855e3e0ab"
 uuid = "b3f4f4ca-9299-4f7f-bd9b-81e1242a7513"
-version = "0.1.26"
+version = "0.1.27"
 weakdeps = ["Adapt", "CUDA", "ClimaCore", "ClimaCoreTempestRemap", "Interpolations", "NCDatasets"]
 
     [deps.ClimaUtilities.extensions]
@@ -661,9 +661,9 @@ version = "1.11.0"
 
 [[deps.DelaunayTriangulation]]
 deps = ["AdaptivePredicates", "EnumX", "ExactPredicates", "Random"]
-git-tree-sha1 = "5620ff4ee0084a6ab7097a27ba0c19290200b037"
+git-tree-sha1 = "783b21581a051ac91a3921ee37e26a23ed7f57a6"
 uuid = "927a84f5-c5f4-47a5-9785-b46e178433df"
-version = "1.6.4"
+version = "1.6.5"
 
 [[deps.DelimitedFiles]]
 deps = ["Mmap"]
@@ -783,9 +783,9 @@ uuid = "4e289a0a-7415-4d19-859d-a7e5c4648b56"
 version = "1.0.5"
 
 [[deps.EnzymeCore]]
-git-tree-sha1 = "e059db5d02720ae826445f5ce2fdfb3d53236b87"
+git-tree-sha1 = "f91e7cb4c17dae77c490b75328f22a226708557c"
 uuid = "f151be2c-9106-41f4-ab19-57ee4f262869"
-version = "0.8.14"
+version = "0.8.15"
 weakdeps = ["Adapt"]
 
     [deps.EnzymeCore.extensions]
@@ -848,9 +848,9 @@ uuid = "9aa1b823-49e4-5ca5-8b0f-3971ec8bab6a"
 version = "0.3.2"
 
 [[deps.FastPower]]
-git-tree-sha1 = "5f7afd4b1a3969dc34d692da2ed856047325b06e"
+git-tree-sha1 = "e47c70bf430175e077d1955d7f04923504acc74c"
 uuid = "a4df4552-cc26-4903-aec0-212e50a0e84b"
-version = "1.1.3"
+version = "1.2.0"
 
     [deps.FastPower.extensions]
     FastPowerEnzymeExt = "Enzyme"
@@ -905,9 +905,9 @@ version = "1.11.0"
 
 [[deps.FillArrays]]
 deps = ["LinearAlgebra"]
-git-tree-sha1 = "173e4d8f14230a7523ae11b9a3fa9edb3e0efd78"
+git-tree-sha1 = "5bfcd42851cf2f1b303f51525a54dc5e98d408a3"
 uuid = "1a297f60-69ca-5386-bcde-b61e274b549b"
-version = "1.14.0"
+version = "1.15.0"
 weakdeps = ["PDMats", "SparseArrays", "Statistics"]
 
     [deps.FillArrays.extensions]
@@ -1316,10 +1316,16 @@ uuid = "692b3bcd-3c85-4b1f-b108-f13ce0eb3210"
 version = "1.7.1"
 
 [[deps.JSON]]
-deps = ["Dates", "Mmap", "Parsers", "Unicode"]
-git-tree-sha1 = "31e996f0a15c7b280ba9f76636b3ff9e2ae58c9a"
+deps = ["Dates", "Logging", "Parsers", "PrecompileTools", "StructUtils", "UUIDs", "Unicode"]
+git-tree-sha1 = "06ea418d0c95878c8f3031023951edcf25b9e0ef"
 uuid = "682c06a0-de6a-54ab-a142-c8b1cf79cde6"
-version = "0.21.4"
+version = "1.2.0"
+
+    [deps.JSON.extensions]
+    JSONArrowExt = ["ArrowTypes"]
+
+    [deps.JSON.weakdeps]
+    ArrowTypes = "31f734f8-188a-4ce0-8406-c8a06bd891cd"
 
 [[deps.Jieko]]
 deps = ["ExproniconLite"]
@@ -1358,9 +1364,9 @@ version = "0.4.10"
 
 [[deps.KernelAbstractions]]
 deps = ["Adapt", "Atomix", "InteractiveUtils", "MacroTools", "PrecompileTools", "Requires", "StaticArrays", "UUIDs"]
-git-tree-sha1 = "83c617e9e9b02306a7acab79e05ec10253db7c87"
+git-tree-sha1 = "b5a371fcd1d989d844a4354127365611ae1e305f"
 uuid = "63c18a36-062a-441e-b654-da1e3ab1ce7c"
-version = "0.9.38"
+version = "0.9.39"
 weakdeps = ["EnzymeCore", "LinearAlgebra", "SparseArrays"]
 
     [deps.KernelAbstractions.extensions]
@@ -1684,9 +1690,9 @@ version = "1.11.0"
 
 [[deps.MathTeXEngine]]
 deps = ["AbstractTrees", "Automa", "DataStructures", "FreeTypeAbstraction", "GeometryBasics", "LaTeXStrings", "REPL", "RelocatableFolders", "UnicodeFun"]
-git-tree-sha1 = "a370fef694c109e1950836176ed0d5eabbb65479"
+git-tree-sha1 = "7eb8cdaa6f0e8081616367c10b31b9d9b34bb02a"
 uuid = "0a4f8689-d25c-4efe-a92b-7142dfc1aa53"
-version = "0.6.6"
+version = "0.6.7"
 
 [[deps.MbedTLS_jll]]
 deps = ["Artifacts", "Libdl"]
@@ -1851,9 +1857,9 @@ version = "3.2.4+0"
 
 [[deps.OpenJpeg_jll]]
 deps = ["Artifacts", "JLLWrappers", "Libdl", "Libtiff_jll", "LittleCMS_jll", "libpng_jll"]
-git-tree-sha1 = "7dc7028a10d1408e9103c0a77da19fdedce4de6c"
+git-tree-sha1 = "215a6666fee6d6b3a6e75f2cc22cb767e2dd393a"
 uuid = "643b3616-a352-519d-856d-80112ee9badc"
-version = "2.5.4+0"
+version = "2.5.5+0"
 
 [[deps.OpenLibm_jll]]
 deps = ["Artifacts", "Libdl"]
@@ -1896,9 +1902,13 @@ version = "10.42.0+1"
 
 [[deps.PDMats]]
 deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse"]
-git-tree-sha1 = "f07c06228a1c670ae4c87d1276b92c7c597fdda0"
+git-tree-sha1 = "d922b4d80d1e12c658da7785e754f4796cc1d60d"
 uuid = "90014a1f-27ba-587c-ab20-58faa44d9150"
-version = "0.11.35"
+version = "0.11.36"
+weakdeps = ["StatsBase"]
+
+    [deps.PDMats.extensions]
+    StatsBaseExt = "StatsBase"
 
 [[deps.PNGFiles]]
 deps = ["Base64", "CEnum", "ImageCore", "IndirectArrays", "OffsetArrays", "libpng_jll"]
@@ -1965,9 +1975,9 @@ version = "0.3.3"
 
 [[deps.PlotUtils]]
 deps = ["ColorSchemes", "Colors", "Dates", "PrecompileTools", "Printf", "Random", "Reexport", "StableRNGs", "Statistics"]
-git-tree-sha1 = "3ca9a356cd2e113c420f2c13bea19f8d3fb1cb18"
+git-tree-sha1 = "26ca162858917496748aad52bb5d3be4d26a228a"
 uuid = "995b91a9-d308-5afd-9ec6-746e21dbc043"
-version = "1.4.3"
+version = "1.4.4"
 
 [[deps.Polyester]]
 deps = ["ArrayInterface", "BitTwiddlingConvenienceFunctions", "CPUSummary", "IfElse", "ManualMemory", "PolyesterWeave", "Static", "StaticArrayInterface", "StrideArraysCore", "ThreadingUtilities"]
@@ -2049,9 +2059,9 @@ version = "1.11.0"
 
 [[deps.ProfileCanvas]]
 deps = ["Base64", "JSON", "Pkg", "Profile", "REPL"]
-git-tree-sha1 = "e42571ce9a614c2fbebcaa8aab23bbf8865c624e"
+git-tree-sha1 = "990016fb1508b0726a70039f39569720d054c78d"
 uuid = "efd6af41-a80b-495e-886c-e51b0c7d77a3"
-version = "0.1.6"
+version = "0.1.7"
 
 [[deps.ProgressMeter]]
 deps = ["Distributed", "Printf"]
@@ -2211,9 +2221,9 @@ version = "0.2.1"
 
 [[deps.RuntimeGeneratedFunctions]]
 deps = ["ExprTools", "SHA", "Serialization"]
-git-tree-sha1 = "86a8a8b783481e1ea6b9c91dd949cb32191f8ab4"
+git-tree-sha1 = "2f609ec2295c452685d3142bc4df202686e555d2"
 uuid = "7e49a35a-f44a-4d26-94aa-eba1b4ca6b47"
-version = "0.5.15"
+version = "0.5.16"
 
 [[deps.SHA]]
 uuid = "ea8e919c-243c-51af-8825-aaa63cd721ce"
@@ -2272,9 +2282,9 @@ version = "2.112.0"
 
 [[deps.SciMLOperators]]
 deps = ["Accessors", "ArrayInterface", "DocStringExtensions", "LinearAlgebra", "MacroTools"]
-git-tree-sha1 = "c1053ba68ede9e4005fc925dd4e8723fcd96eef8"
+git-tree-sha1 = "18e8ea3fdfca9c3408f1df8fc1d7690b12784338"
 uuid = "c0aeaf25-5076-4817-a8d5-81caf7dfa961"
-version = "1.9.0"
+version = "1.10.0"
 weakdeps = ["SparseArrays", "StaticArraysCore"]
 
     [deps.SciMLOperators.extensions]
@@ -2396,19 +2406,22 @@ version = "1.11.0"
 
 [[deps.SparseMatrixColorings]]
 deps = ["ADTypes", "DocStringExtensions", "LinearAlgebra", "PrecompileTools", "Random", "SparseArrays"]
-git-tree-sha1 = "d3f3b7bb8a561b5ff20ee7cf9574841ee4e4e137"
+git-tree-sha1 = "6ed48d9a3b22417c765dc273ae3e1e4de035e7c8"
 uuid = "0a514795-09f3-496d-8182-132a7b665d35"
-version = "0.4.22"
+version = "0.4.23"
 
     [deps.SparseMatrixColorings.extensions]
     SparseMatrixColoringsCUDAExt = "CUDA"
     SparseMatrixColoringsCliqueTreesExt = "CliqueTrees"
     SparseMatrixColoringsColorsExt = "Colors"
+    SparseMatrixColoringsJuMPExt = ["JuMP", "MathOptInterface"]
 
     [deps.SparseMatrixColorings.weakdeps]
     CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba"
     CliqueTrees = "60701a23-6482-424a-84db-faee86b9b1f8"
     Colors = "5ae59095-9a9b-59fe-a467-6f913c188581"
+    JuMP = "4076af6c-e467-56ae-b986-b466b2749572"
+    MathOptInterface = "b8f27783-ece8-5eb3-8dc8-9495eed66fee"
 
 [[deps.SpecialFunctions]]
 deps = ["IrrationalConstants", "LogExpFunctions", "OpenLibm_jll", "OpenSpecFun_jll"]
@@ -2530,6 +2543,20 @@ weakdeps = ["Adapt", "GPUArraysCore", "KernelAbstractions", "LinearAlgebra", "Sp
     StructArraysSparseArraysExt = "SparseArrays"
     StructArraysStaticArraysExt = "StaticArrays"
 
+[[deps.StructUtils]]
+deps = ["Dates", "UUIDs"]
+git-tree-sha1 = "cd47aa083c9c7bdeb7b92de26deb46d6a33163c9"
+uuid = "ec057cc2-7a8d-4b58-b3b3-92acb9f63b42"
+version = "2.5.1"
+
+    [deps.StructUtils.extensions]
+    StructUtilsMeasurementsExt = ["Measurements"]
+    StructUtilsTablesExt = ["Tables"]
+
+    [deps.StructUtils.weakdeps]
+    Measurements = "eff96d63-e80a-5855-80a2-b1b0885c5ab7"
+    Tables = "bd369af6-aec1-5ad0-b16a-f7cc5008161c"
+
 [[deps.StyledStrings]]
 uuid = "f489334b-da3d-4c2e-b8f0-e476e12c162b"
 version = "1.11.0"
@@ -2819,9 +2846,9 @@ version = "1.6.0+0"
 
 [[deps.YAML]]
 deps = ["Base64", "Dates", "Printf", "StringEncodings"]
-git-tree-sha1 = "2f58ac39f64b41fb812340347525be3b590cce3b"
+git-tree-sha1 = "ed87adf5041ca93203093b03e0d78b6a9d987290"
 uuid = "ddb6d928-2868-570f-bddf-ab3f9cf99eb6"
-version = "0.4.14"
+version = "0.4.15"
 
 [[deps.Zlib_jll]]
 deps = ["Libdl"]

Project.toml

@@ -1,7 +1,7 @@
 name = "ClimaAtmos"
 uuid = "b2c96348-7fb7-4fe0-8da9-78d88439e717"
 authors = ["Climate Modeling Alliance"]
-version = "0.31.7"
+version = "0.31.8"
 
 [deps]
 Adapt = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"

reproducibility_tests/ref_counter.jl

@@ -1,4 +1,4 @@
-272
+273
 
 # **README**
 #
@@ -20,6 +20,9 @@
 
 
 #=
+273
+- Updated deps
+
 272
 - Remove contribution from tke exchange in mixing length