Merge pull request #3055 from CliMA/ar/v0241

tag v0.24.1
CliMA · May 29, 2024 · b9ab189 · b9ab189
2 parents 6635bd0 + 15bfa11
commit b9ab189
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diff --git a/NEWS.md b/NEWS.md
@@ -4,6 +4,9 @@ ClimaAtmos.jl Release Notes
 Main
 -------
 
+v0.24.1
+-------
+
 v0.24.0
 -------
 - ![][badge-💥breaking]. CPU/GPU runs can now share the same yaml files. The driver now calls `AtmosConfig` via `(; config_file, job_id) = ClimaAtmos.commandline_kwargs(); config = ClimaAtmos.AtmosConfig(config_file; job_id)`, which recovers the original behavior. PR [#2994](https://github.com/CliMA/ClimaAtmos.jl/pull/2994), issue [#2651](https://github.com/CliMA/ClimaAtmos.jl/issues/2651).

diff --git a/Project.toml b/Project.toml
@@ -1,7 +1,7 @@
 name = "ClimaAtmos"
 uuid = "b2c96348-7fb7-4fe0-8da9-78d88439e717"
 authors = ["Climate Modeling Alliance"]
-version = "0.24.0"
+version = "0.24.1"
 
 [deps]
 Adapt = "79e6a3ab-5dfb-504d-930d-738a2a938a0e"

diff --git a/docs/Manifest.toml b/docs/Manifest.toml
@@ -259,9 +259,9 @@ version = "1.0.1+0"
 
 [[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"]
-git-tree-sha1 = "fe61a257e94621e25471071ca58d29ea45eef13b"
+git-tree-sha1 = "b8c28cb78014f7ae81a652ce1524cba7667dea5c"
 uuid = "052768ef-5323-5732-b1bb-66c8b64840ba"
-version = "5.3.4"
+version = "5.3.5"
 weakdeps = ["ChainRulesCore", "EnzymeCore", "SpecialFunctions"]
 
     [deps.CUDA.extensions]
@@ -325,7 +325,7 @@ weakdeps = ["SparseArrays"]
 deps = ["Adapt", "ArgParse", "ArtifactWrappers", "Artifacts", "AtmosphericProfilesLibrary", "ClimaComms", "ClimaCore", "ClimaDiagnostics", "ClimaParams", "ClimaTimeSteppers", "ClimaUtilities", "CloudMicrophysics", "Colors", "Dates", "Dierckx", "DiffEqBase", "Distributions", "DocStringExtensions", "FastGaussQuadrature", "Insolation", "Interpolations", "IntervalSets", "Krylov", "LinearAlgebra", "Logging", "NCDatasets", "NVTX", "Pkg", "Printf", "RRTMGP", "Random", "RootSolvers", "SciMLBase", "StaticArrays", "Statistics", "StatsBase", "SurfaceFluxes", "Thermodynamics", "YAML"]
 path = ".."
 uuid = "b2c96348-7fb7-4fe0-8da9-78d88439e717"
-version = "0.24.0"
+version = "0.24.1"
 
 [[deps.ClimaComms]]
 deps = ["CUDA", "MPI"]
@@ -405,10 +405,17 @@ uuid = "fb6a15b2-703c-40df-9091-08a04967cfa9"
 version = "0.1.12"
 
 [[deps.CloudMicrophysics]]
-deps = ["ClimaParams", "DocStringExtensions", "ForwardDiff", "RootSolvers", "SpecialFunctions", "Thermodynamics"]
-git-tree-sha1 = "4d6c1e67ff8924b14313d71edd3fed6cf9586ae7"
+deps = ["ClimaParams", "DocStringExtensions", "ForwardDiff", "QuadGK", "RootSolvers", "SpecialFunctions", "Thermodynamics"]
+git-tree-sha1 = "fa8eb6554284dd04c861f0f91aef12df66f84b3f"
 uuid = "6a9e3e04-43cd-43ba-94b9-e8782df3c71b"
-version = "0.18.0"
+version = "0.20.2"
+
+    [deps.CloudMicrophysics.extensions]
+    EmulatorModelsExt = ["DataFrames", "MLJ"]
+
+    [deps.CloudMicrophysics.weakdeps]
+    DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
+    MLJ = "add582a8-e3ab-11e8-2d5e-e98b27df1bc7"
 
 [[deps.CodecZlib]]
 deps = ["TranscodingStreams", "Zlib_jll"]
@@ -581,9 +588,9 @@ version = "0.1.0+0"
 
 [[deps.DiffEqBase]]
 deps = ["ArrayInterface", "ConcreteStructs", "DataStructures", "DocStringExtensions", "EnumX", "EnzymeCore", "FastBroadcast", "FastClosures", "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 = "03b9555f4c3a7c2f530bb1ae13e85719c632f74e"
+git-tree-sha1 = "37d49a1f8eedfe68b7622075ff3ebe3dd0e8f327"
 uuid = "2b5f629d-d688-5b77-993f-72d75c75574e"
-version = "6.151.1"
+version = "6.151.2"
 
     [deps.DiffEqBase.extensions]
     DiffEqBaseCUDAExt = "CUDA"
@@ -716,9 +723,9 @@ uuid = "4e289a0a-7415-4d19-859d-a7e5c4648b56"
 version = "1.0.4"
 
 [[deps.EnzymeCore]]
-git-tree-sha1 = "18394bc78ac2814ff38fe5e0c9dc2cd171e2810c"
+git-tree-sha1 = "0910982db2490a20f81dc7db5d4bbea236c027b3"
 uuid = "f151be2c-9106-41f4-ab19-57ee4f262869"
-version = "0.7.2"
+version = "0.7.3"
 weakdeps = ["Adapt"]
 
     [deps.EnzymeCore.extensions]
@@ -1489,9 +1496,9 @@ version = "0.1.11"
 
 [[deps.MPItrampoline_jll]]
 deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML"]
-git-tree-sha1 = "ce0ca3dd147c43de175c5aff161315a424f4b8ac"
+git-tree-sha1 = "8c35d5420193841b2f367e658540e8d9e0601ed0"
 uuid = "f1f71cc9-e9ae-5b93-9b94-4fe0e1ad3748"
-version = "5.3.3+1"
+version = "5.4.0+0"
 
 [[deps.MacroTools]]
 deps = ["Markdown", "Random"]
@@ -1619,9 +1626,9 @@ version = "1.0.2"
 
 [[deps.NetCDF_jll]]
 deps = ["Artifacts", "Blosc_jll", "Bzip2_jll", "HDF5_jll", "JLLWrappers", "LazyArtifacts", "LibCURL_jll", "Libdl", "MPICH_jll", "MPIPreferences", "MPItrampoline_jll", "MicrosoftMPI_jll", "OpenMPI_jll", "TOML", "XML2_jll", "Zlib_jll", "Zstd_jll", "libzip_jll"]
-git-tree-sha1 = "ef30054d4e6eab74228cc7beae0c0873129bc078"
+git-tree-sha1 = "4686378c4ae1d1948cfbe46c002a11a4265dcb07"
 uuid = "7243133f-43d8-5620-bbf4-c2c921802cf3"
-version = "400.902.211+0"
+version = "400.902.211+1"
 
 [[deps.Netpbm]]
 deps = ["FileIO", "ImageCore", "ImageMetadata"]
@@ -1835,9 +1842,9 @@ version = "1.4.3"
 
 [[deps.PrettyTables]]
 deps = ["Crayons", "LaTeXStrings", "Markdown", "PrecompileTools", "Printf", "Reexport", "StringManipulation", "Tables"]
-git-tree-sha1 = "88b895d13d53b5577fd53379d913b9ab9ac82660"
+git-tree-sha1 = "66b20dd35966a748321d3b2537c4584cf40387c7"
 uuid = "08abe8d2-0d0c-5749-adfa-8a2ac140af0d"
-version = "2.3.1"
+version = "2.3.2"
 
 [[deps.Printf]]
 deps = ["Unicode"]
@@ -1856,9 +1863,9 @@ uuid = "92933f4c-e287-5a05-a399-4b506db050ca"
 version = "1.10.0"
 
 [[deps.PtrArrays]]
-git-tree-sha1 = "077664975d750757f30e739c870fbbdc01db7913"
+git-tree-sha1 = "f011fbb92c4d401059b2212c05c0601b70f8b759"
 uuid = "43287f4e-b6f4-7ad1-bb20-aadabca52c3d"
-version = "1.1.0"
+version = "1.2.0"
 
 [[deps.QOI]]
 deps = ["ColorTypes", "FileIO", "FixedPointNumbers"]
@@ -2016,9 +2023,9 @@ version = "0.1.0"
 
 [[deps.SciMLBase]]
 deps = ["ADTypes", "ArrayInterface", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "PrecompileTools", "Preferences", "Printf", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "SciMLStructures", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables"]
-git-tree-sha1 = "265f1a7a804d8093fa0b17e33e45373a77e56ca5"
+git-tree-sha1 = "9f59654e2a85017ee27b0f59c7fac5a57aa10ced"
 uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462"
-version = "2.38.0"
+version = "2.39.0"
 
     [deps.SciMLBase.extensions]
     SciMLBaseChainRulesCoreExt = "ChainRulesCore"
@@ -2259,9 +2266,9 @@ weakdeps = ["ClimaParams"]
 
 [[deps.SymbolicIndexingInterface]]
 deps = ["Accessors", "ArrayInterface", "RuntimeGeneratedFunctions", "StaticArraysCore"]
-git-tree-sha1 = "b479c7a16803f08779ac5b7f9844a42621baeeda"
+git-tree-sha1 = "a5f6f138b740c9d93d76f0feddd3092e6ef002b7"
 uuid = "2efcf032-c050-4f8e-a9bb-153293bab1f5"
-version = "0.3.21"
+version = "0.3.22"
 
 [[deps.TOML]]
 deps = ["Dates"]
@@ -2488,9 +2495,9 @@ version = "1.5.0+0"
 
 [[deps.YAML]]
 deps = ["Base64", "Dates", "Printf", "StringEncodings"]
-git-tree-sha1 = "e6330e4b731a6af7959673621e91645eb1356884"
+git-tree-sha1 = "669a78c59a307fa3ebc0a0bffd7ae83bd2184361"
 uuid = "ddb6d928-2868-570f-bddf-ab3f9cf99eb6"
-version = "0.4.9"
+version = "0.4.10"
 
 [[deps.Zlib_jll]]
 deps = ["Libdl"]

diff --git a/docs/Project.toml b/docs/Project.toml
@@ -2,8 +2,8 @@
 ArgParse = "c7e460c6-2fb9-53a9-8c5b-16f535851c63"
 CairoMakie = "13f3f980-e62b-5c42-98c6-ff1f3baf88f0"
 ClimaAtmos = "b2c96348-7fb7-4fe0-8da9-78d88439e717"
-ClimaParams = "5c42b081-d73a-476f-9059-fd94b934656c"
 ClimaDiagnostics = "1ecacbb8-0713-4841-9a07-eb5aa8a2d53f"
+ClimaParams = "5c42b081-d73a-476f-9059-fd94b934656c"
 DiffEqBase = "2b5f629d-d688-5b77-993f-72d75c75574e"
 Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
 DocumenterCitations = "daee34ce-89f3-4625-b898-19384cb65244"

diff --git a/examples/Manifest.toml b/examples/Manifest.toml
@@ -237,9 +237,9 @@ version = "1.0.1+0"
 
 [[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"]
-git-tree-sha1 = "fe61a257e94621e25471071ca58d29ea45eef13b"
+git-tree-sha1 = "b8c28cb78014f7ae81a652ce1524cba7667dea5c"
 uuid = "052768ef-5323-5732-b1bb-66c8b64840ba"
-version = "5.3.4"
+version = "5.3.5"
 weakdeps = ["ChainRulesCore", "EnzymeCore", "SpecialFunctions"]
 
     [deps.CUDA.extensions]
@@ -317,7 +317,7 @@ version = "0.5.2"
 deps = ["Adapt", "ArgParse", "ArtifactWrappers", "Artifacts", "AtmosphericProfilesLibrary", "ClimaComms", "ClimaCore", "ClimaDiagnostics", "ClimaParams", "ClimaTimeSteppers", "ClimaUtilities", "CloudMicrophysics", "Colors", "Dates", "Dierckx", "DiffEqBase", "Distributions", "DocStringExtensions", "FastGaussQuadrature", "Insolation", "Interpolations", "IntervalSets", "Krylov", "LinearAlgebra", "Logging", "NCDatasets", "NVTX", "Pkg", "Printf", "RRTMGP", "Random", "RootSolvers", "SciMLBase", "StaticArrays", "Statistics", "StatsBase", "SurfaceFluxes", "Thermodynamics", "YAML"]
 path = ".."
 uuid = "b2c96348-7fb7-4fe0-8da9-78d88439e717"
-version = "0.24.0"
+version = "0.24.1"
 
 [[deps.ClimaComms]]
 deps = ["CUDA", "MPI"]
@@ -419,10 +419,17 @@ uuid = "fb6a15b2-703c-40df-9091-08a04967cfa9"
 version = "0.1.12"
 
 [[deps.CloudMicrophysics]]
-deps = ["ClimaParams", "DocStringExtensions", "ForwardDiff", "RootSolvers", "SpecialFunctions", "Thermodynamics"]
-git-tree-sha1 = "4d6c1e67ff8924b14313d71edd3fed6cf9586ae7"
+deps = ["ClimaParams", "DocStringExtensions", "ForwardDiff", "QuadGK", "RootSolvers", "SpecialFunctions", "Thermodynamics"]
+git-tree-sha1 = "fa8eb6554284dd04c861f0f91aef12df66f84b3f"
 uuid = "6a9e3e04-43cd-43ba-94b9-e8782df3c71b"
-version = "0.18.0"
+version = "0.20.2"
+
+    [deps.CloudMicrophysics.extensions]
+    EmulatorModelsExt = ["DataFrames", "MLJ"]
+
+    [deps.CloudMicrophysics.weakdeps]
+    DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
+    MLJ = "add582a8-e3ab-11e8-2d5e-e98b27df1bc7"
 
 [[deps.CodeTracking]]
 deps = ["InteractiveUtils", "UUIDs"]
@@ -601,9 +608,9 @@ version = "0.1.0+0"
 
 [[deps.DiffEqBase]]
 deps = ["ArrayInterface", "ConcreteStructs", "DataStructures", "DocStringExtensions", "EnumX", "EnzymeCore", "FastBroadcast", "FastClosures", "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 = "03b9555f4c3a7c2f530bb1ae13e85719c632f74e"
+git-tree-sha1 = "37d49a1f8eedfe68b7622075ff3ebe3dd0e8f327"
 uuid = "2b5f629d-d688-5b77-993f-72d75c75574e"
-version = "6.151.1"
+version = "6.151.2"
 
     [deps.DiffEqBase.extensions]
     DiffEqBaseCUDAExt = "CUDA"
@@ -724,9 +731,9 @@ uuid = "4e289a0a-7415-4d19-859d-a7e5c4648b56"
 version = "1.0.4"
 
 [[deps.EnzymeCore]]
-git-tree-sha1 = "18394bc78ac2814ff38fe5e0c9dc2cd171e2810c"
+git-tree-sha1 = "0910982db2490a20f81dc7db5d4bbea236c027b3"
 uuid = "f151be2c-9106-41f4-ab19-57ee4f262869"
-version = "0.7.2"
+version = "0.7.3"
 weakdeps = ["Adapt"]
 
     [deps.EnzymeCore.extensions]
@@ -1511,9 +1518,9 @@ version = "0.1.11"
 
 [[deps.MPItrampoline_jll]]
 deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML"]
-git-tree-sha1 = "ce0ca3dd147c43de175c5aff161315a424f4b8ac"
+git-tree-sha1 = "8c35d5420193841b2f367e658540e8d9e0601ed0"
 uuid = "f1f71cc9-e9ae-5b93-9b94-4fe0e1ad3748"
-version = "5.3.3+1"
+version = "5.4.0+0"
 
 [[deps.MacroTools]]
 deps = ["Markdown", "Random"]
@@ -1641,9 +1648,9 @@ version = "1.0.2"
 
 [[deps.NetCDF_jll]]
 deps = ["Artifacts", "Blosc_jll", "Bzip2_jll", "HDF5_jll", "JLLWrappers", "LazyArtifacts", "LibCURL_jll", "Libdl", "MPICH_jll", "MPIPreferences", "MPItrampoline_jll", "MicrosoftMPI_jll", "OpenMPI_jll", "TOML", "XML2_jll", "Zlib_jll", "Zstd_jll", "libzip_jll"]
-git-tree-sha1 = "ef30054d4e6eab74228cc7beae0c0873129bc078"
+git-tree-sha1 = "4686378c4ae1d1948cfbe46c002a11a4265dcb07"
 uuid = "7243133f-43d8-5620-bbf4-c2c921802cf3"
-version = "400.902.211+0"
+version = "400.902.211+1"
 
 [[deps.Netpbm]]
 deps = ["FileIO", "ImageCore", "ImageMetadata"]
@@ -1881,9 +1888,9 @@ version = "1.4.3"
 
 [[deps.PrettyTables]]
 deps = ["Crayons", "LaTeXStrings", "Markdown", "PrecompileTools", "Printf", "Reexport", "StringManipulation", "Tables"]
-git-tree-sha1 = "88b895d13d53b5577fd53379d913b9ab9ac82660"
+git-tree-sha1 = "66b20dd35966a748321d3b2537c4584cf40387c7"
 uuid = "08abe8d2-0d0c-5749-adfa-8a2ac140af0d"
-version = "2.3.1"
+version = "2.3.2"
 
 [[deps.Printf]]
 deps = ["Unicode"]
@@ -1912,9 +1919,9 @@ uuid = "92933f4c-e287-5a05-a399-4b506db050ca"
 version = "1.10.0"
 
 [[deps.PtrArrays]]
-git-tree-sha1 = "077664975d750757f30e739c870fbbdc01db7913"
+git-tree-sha1 = "f011fbb92c4d401059b2212c05c0601b70f8b759"
 uuid = "43287f4e-b6f4-7ad1-bb20-aadabca52c3d"
-version = "1.1.0"
+version = "1.2.0"
 
 [[deps.QOI]]
 deps = ["ColorTypes", "FileIO", "FixedPointNumbers"]
@@ -2072,9 +2079,9 @@ version = "0.1.0"
 
 [[deps.SciMLBase]]
 deps = ["ADTypes", "ArrayInterface", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "PrecompileTools", "Preferences", "Printf", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "SciMLStructures", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables"]
-git-tree-sha1 = "265f1a7a804d8093fa0b17e33e45373a77e56ca5"
+git-tree-sha1 = "9f59654e2a85017ee27b0f59c7fac5a57aa10ced"
 uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462"
-version = "2.38.0"
+version = "2.39.0"
 
     [deps.SciMLBase.extensions]
     SciMLBaseChainRulesCoreExt = "ChainRulesCore"
@@ -2309,9 +2316,9 @@ weakdeps = ["ClimaParams"]
 
 [[deps.SymbolicIndexingInterface]]
 deps = ["Accessors", "ArrayInterface", "RuntimeGeneratedFunctions", "StaticArraysCore"]
-git-tree-sha1 = "b479c7a16803f08779ac5b7f9844a42621baeeda"
+git-tree-sha1 = "a5f6f138b740c9d93d76f0feddd3092e6ef002b7"
 uuid = "2efcf032-c050-4f8e-a9bb-153293bab1f5"
-version = "0.3.21"
+version = "0.3.22"
 
 [[deps.TOML]]
 deps = ["Dates"]
@@ -2539,9 +2546,9 @@ version = "1.5.0+0"
 
 [[deps.YAML]]
 deps = ["Base64", "Dates", "Printf", "StringEncodings"]
-git-tree-sha1 = "e6330e4b731a6af7959673621e91645eb1356884"
+git-tree-sha1 = "669a78c59a307fa3ebc0a0bffd7ae83bd2184361"
 uuid = "ddb6d928-2868-570f-bddf-ab3f9cf99eb6"
-version = "0.4.9"
+version = "0.4.10"
 
 [[deps.Zlib_jll]]
 deps = ["Libdl"]
-Original file line number
+Diff line change
@@ Expand Up / @@ -4,6 +4,9 @@ ClimaAtmos.jl Release Notes @@
     Main
     -------
+    v0.24.1
+    -------
     v0.24.0
     -------
     - ![][badge-💥breaking]. CPU/GPU runs can now share the same yaml files. The driver now calls `AtmosConfig` via `(; config_file, job_id) = ClimaAtmos.commandline_kwargs(); config = ClimaAtmos.AtmosConfig(config_file; job_id)`, which recovers the original behavior. PR [#2994](https://github.com/CliMA/ClimaAtmos.jl/pull/2994), issue [#2651](https://github.com/CliMA/ClimaAtmos.jl/issues/2651).
@@ Expand Down @@