From 9a2bb4479b5f5e127a5f85b2830ec4cf54e77e9e Mon Sep 17 00:00:00 2001 From: Akshay Sridhar Date: Mon, 3 Jun 2024 10:43:00 -0700 Subject: [PATCH] implement smagorinsky lilly closure --- .gitignore | 2 + config/default_configs/default_config.yml | 9 + .../box_density_current_test.yml | 28 +- config/model_configs/les_isdac_box.yml | 6 +- examples/Manifest-v1.11.toml | 2704 +++++++++++++++++ examples/Manifest.toml | 294 +- examples/Project.toml | 2 +- post_processing/ci_plots.jl | 98 +- src/ClimaAtmos.jl | 7 + src/cache/precomputed_quantities.jl | 18 + src/cache/temporary_quantities.jl | 15 +- .../les_sgs_models/smagorinsky_lilly.jl | 174 ++ .../radiation/radiation.jl | 4 +- .../remaining_tendency.jl | 4 + src/solver/model_getters.jl | 12 + src/solver/type_getters.jl | 5 + src/solver/types.jl | 8 + .../gravity_wave/gw_plotutils.jl | 9 +- .../les_closures/smagorinsky_lilly.jl | 69 + toml/{isdac_box.toml => les_isdac.toml} | 0 20 files changed, 3300 insertions(+), 168 deletions(-) create mode 100644 examples/Manifest-v1.11.toml create mode 100644 src/parameterized_tendencies/les_sgs_models/smagorinsky_lilly.jl create mode 100644 test/parameterized_tendencies/les_closures/smagorinsky_lilly.jl rename toml/{isdac_box.toml => les_isdac.toml} (100%) diff --git a/.gitignore b/.gitignore index 4cf65a220c6..ed7ca000738 100644 --- a/.gitignore +++ b/.gitignore @@ -32,6 +32,8 @@ docs/src/config.md test/Manifest*.toml calibration/test/Manifest*.toml +Artifacts.toml + # ignore vscode artifacts *.vscode *.DS diff --git a/config/default_configs/default_config.yml b/config/default_configs/default_config.yml index 708cdf0801b..53b82d41ec6 100644 --- a/config/default_configs/default_config.yml +++ b/config/default_configs/default_config.yml @@ -145,6 +145,15 @@ vert_diff: hyperdiff: help: "Hyperdiffusion [`ClimaHyperdiffusion` (or `true`; default), `none` (or `false`)]" value: "CAM_SE" +smagorinsky_lilly: + help: "Smagorinsky-Lilly diffusive closure [`false` (default), `true`]" + value: false +c_smag: + help: "Smagorinsky coefficient" + value: 0.2 +prandtl_turbulent_neutral: + help: "Turbulent Prandtl number for neutral stratification" + value: 0.333 bubble: help: "Enable bubble correction for more accurate surface areas" value: true diff --git a/config/model_configs/box_density_current_test.yml b/config/model_configs/box_density_current_test.yml index 0c3e346d21d..312b5366403 100644 --- a/config/model_configs/box_density_current_test.yml +++ b/config/model_configs/box_density_current_test.yml @@ -1,16 +1,22 @@ -dt_save_state_to_disk: "10secs" +reference_job_id: "les_box" initial_condition: "DryDensityCurrentProfile" +config: "box" +smagorinsky_lilly: true +c_smag: 0.25 +discrete_hydrostatic_balance: true +hyperdiff: "false" x_max: 51200.0 +y_max: 51200.0 +z_max: 6400.0 +x_elem: 45 +y_elem: 45 z_elem: 45 -dt: "0.1secs" -t_end: "10.0secs" -discrete_hydrostatic_balance: true -y_max: 6400.0 -y_elem: 15 z_stretch: false -x_elem: 45 -config: "box" -z_max: 6400.0 +dt: "0.25secs" +t_end: "20secs" +prandtl_turbulent_neutral: 0.333 +dt_save_state_to_disk: "5secs" +netcdf_interpolation_num_points: [40, 40, 80] diagnostics: - - short_name: thetaa - period: 10secs + - short_name: [wa, ua, va, ta, thetaa, ha] + period: 5secs diff --git a/config/model_configs/les_isdac_box.yml b/config/model_configs/les_isdac_box.yml index 06bdbf55a9f..5a6f4c9a590 100644 --- a/config/model_configs/les_isdac_box.yml +++ b/config/model_configs/les_isdac_box.yml @@ -1,4 +1,5 @@ # ISDAC config +reference_job_id: "les_box" # for plotting initial_condition: "ISDAC" subsidence: "ISDAC" surface_setup: "ISDAC" @@ -15,6 +16,7 @@ hyperdiff: "false" apply_limiter: false smagorinsky_lilly: true c_smag: 0.20 +prandtl_turbulent_neutral: 0.333 # time- and spatial discretization x_elem: 10 x_max: 3.2e3 @@ -24,11 +26,13 @@ z_elem: 15 z_max: 2.5e3 z_stretch: false rayleigh_sponge: true -toml: [toml/isdac_box.toml] # sponge height +toml: [toml/les_isdac.toml] # sponge height ode_algo: "SSPKnoth" dt: "0.05secs" t_end: "2mins" dt_cloud_fraction: "10mins" +restart_file: "/groups/esm/hervik/climaatmos-les-artifacts/les_isdac_day0.0.hdf5" +# diagnostics dt_save_state_to_disk: "1mins" netcdf_interpolation_num_points: [30, 30, 150] diagnostics: diff --git a/examples/Manifest-v1.11.toml b/examples/Manifest-v1.11.toml new file mode 100644 index 00000000000..4c5779a60f1 --- /dev/null +++ b/examples/Manifest-v1.11.toml @@ -0,0 +1,2704 @@ +# This file is machine-generated - editing it directly is not advised + +julia_version = "1.11.1" +manifest_format = "2.0" +project_hash = "acdac96270a93ae35f3e35c16b314df5a99f63c8" + +[[deps.ADTypes]] +git-tree-sha1 = "eea5d80188827b35333801ef97a40c2ed653b081" +uuid = "47edcb42-4c32-4615-8424-f2b9edc5f35b" +version = "1.9.0" +weakdeps = ["ChainRulesCore", "EnzymeCore"] + + [deps.ADTypes.extensions] + ADTypesChainRulesCoreExt = "ChainRulesCore" + ADTypesEnzymeCoreExt = "EnzymeCore" + +[[deps.AbstractFFTs]] +deps = ["LinearAlgebra"] 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+version = "10164.0.0+0" + +[[deps.x265_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "dcc541bb19ed5b0ede95581fb2e41ecf179527d2" +uuid = "dfaa095f-4041-5dcd-9319-2fabd8486b76" +version = "3.6.0+0" diff --git a/examples/Manifest.toml b/examples/Manifest.toml index 909a799dcd6..ba93fa277f4 100644 --- a/examples/Manifest.toml +++ b/examples/Manifest.toml @@ -1,13 +1,13 @@ # This file is machine-generated - editing it directly is not advised -julia_version = "1.10.6" +julia_version = "1.10.5" manifest_format = "2.0" -project_hash = "b0cd3fa0e3153549529fa43102bd0bdae16ff23d" +project_hash = "13bc74579bbfd1b4bab2e5d6cddd05f9a01dba06" [[deps.ADTypes]] -git-tree-sha1 = "30bb95a372787af850addf28ac937f1be7b79173" +git-tree-sha1 = "72af59f5b8f09faee36b4ec48e014a79210f2f4f" uuid = "47edcb42-4c32-4615-8424-f2b9edc5f35b" -version = "1.10.0" +version = "1.11.0" weakdeps = ["ChainRulesCore", "ConstructionBase", "EnzymeCore"] [deps.ADTypes.extensions] @@ -79,9 +79,9 @@ version = "1.1.3" [[deps.Animations]] deps = ["Colors"] -git-tree-sha1 = "e81c509d2c8e49592413bfb0bb3b08150056c79d" +git-tree-sha1 = "e092fa223bf66a3c41f9c022bd074d916dc303e7" uuid = "27a7e980-b3e6-11e9-2bcd-0b925532e340" -version = "0.4.1" +version = "0.4.2" [[deps.ArgParse]] deps = ["Logging", "TextWrap"] @@ -95,9 +95,9 @@ version = "1.1.1" [[deps.ArrayInterface]] deps = ["Adapt", "LinearAlgebra"] -git-tree-sha1 = "d60a1922358aa203019b7857a2c8c37329b8736c" +git-tree-sha1 = "d5140b60b87473df18cf4fe66382b7c3596df047" uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9" -version = "7.17.0" +version = "7.17.1" [deps.ArrayInterface.extensions] ArrayInterfaceBandedMatricesExt = "BandedMatrices" @@ -201,9 +201,9 @@ version = "0.1.6" [[deps.BlockArrays]] deps = ["ArrayLayouts", "FillArrays", "LinearAlgebra"] -git-tree-sha1 = "d434647f798823bcae510aee0bc0401927f64391" +git-tree-sha1 = "62551a412126a8c979febd1a05a986928719639e" uuid = "8e7c35d0-a365-5155-bbbb-fb81a777f24e" -version = "1.1.1" +version = "1.2.0" weakdeps = ["BandedMatrices"] [deps.BlockArrays.extensions] @@ -254,10 +254,10 @@ uuid = "4e9b3aee-d8a1-5a3d-ad8b-7d824db253f0" 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 = "cdbdca28f19c2c7fcf34ffb48bfdaca404dcd18a" +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", "demumble_jll"] +git-tree-sha1 = "e0725a467822697171af4dae15cec10b4fc19053" uuid = "052768ef-5323-5732-b1bb-66c8b64840ba" -version = "5.5.0" +version = "5.5.2" weakdeps = ["ChainRulesCore", "EnzymeCore", "SpecialFunctions"] [deps.CUDA.extensions] @@ -267,9 +267,9 @@ weakdeps = ["ChainRulesCore", "EnzymeCore", "SpecialFunctions"] [[deps.CUDA_Driver_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "ccd1e54610c222fadfd4737dac66bff786f63656" +git-tree-sha1 = "14996d716a2eaaeccfc8d7bc854dd87fde720ac1" uuid = "4ee394cb-3365-5eb0-8335-949819d2adfc" -version = "0.10.3+0" +version = "0.10.4+0" [[deps.CUDA_Runtime_Discovery]] deps = ["Libdl"] @@ -279,9 +279,9 @@ version = "0.3.5" [[deps.CUDA_Runtime_jll]] deps = ["Artifacts", "CUDA_Driver_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "TOML"] -git-tree-sha1 = "ed8a056a88f5b852df94046060f6770a57334728" +git-tree-sha1 = "17f1536c600133f7c4113bae0a2d98dbf27c7ebc" uuid = "76a88914-d11a-5bdc-97e0-2f5a05c973a2" -version = "0.15.4+0" +version = "0.15.5+0" [[deps.Cairo]] deps = ["Cairo_jll", "Colors", "Glib_jll", "Graphics", "Libdl", "Pango_jll"] @@ -290,10 +290,10 @@ uuid = "159f3aea-2a34-519c-b102-8c37f9878175" version = "1.1.1" [[deps.CairoMakie]] -deps = ["CRC32c", "Cairo", "Colors", "FileIO", "FreeType", "GeometryBasics", "LinearAlgebra", "Makie", "PrecompileTools"] -git-tree-sha1 = "d69c7593fe9d7d617973adcbe4762028c6899b2c" +deps = ["CRC32c", "Cairo", "Cairo_jll", "Colors", "FileIO", "FreeType", "GeometryBasics", "LinearAlgebra", "Makie", "PrecompileTools"] +git-tree-sha1 = "c3161fbfe99d9d7ee121cf2017d49966b152857c" uuid = "13f3f980-e62b-5c42-98c6-ff1f3baf88f0" -version = "0.11.11" +version = "0.12.16" [[deps.Cairo_jll]] deps = ["Artifacts", "Bzip2_jll", "CompilerSupportLibraries_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "JLLWrappers", "LZO_jll", "Libdl", "Pixman_jll", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Zlib_jll", "libpng_jll"] @@ -312,14 +312,14 @@ weakdeps = ["SparseArrays"] ChainRulesCoreSparseArraysExt = "SparseArrays" [[deps.ClimaAnalysis]] -deps = ["Dates", "Interpolations", "NCDatasets", "NaNStatistics", "OrderedCollections", "Reexport", "Statistics"] -git-tree-sha1 = "e13d742cd5a5ad287cf72ab22cb0927780cfe596" +deps = ["Artifacts", "Dates", "Interpolations", "NCDatasets", "NaNStatistics", "OrderedCollections", "Reexport", "Statistics", "Unitful"] +git-tree-sha1 = "b67f8f5f754fde6132bae1a2add06e51cf26227b" uuid = "29b5916a-a76c-4e73-9657-3c8fd22e65e6" -version = "0.5.7" +version = "0.5.12" [deps.ClimaAnalysis.extensions] - GeoMakieExt = "GeoMakie" - MakieExt = "Makie" + ClimaAnalysisGeoMakieExt = "GeoMakie" + ClimaAnalysisMakieExt = "Makie" [deps.ClimaAnalysis.weakdeps] GeoMakie = "db073c08-6b98-4ee5-b6a4-5efafb3259c6" @@ -417,15 +417,14 @@ version = "0.7.38" StatsBase = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91" [[deps.ClimaUtilities]] -deps = ["Artifacts", "Dates"] -git-tree-sha1 = "f99f60059af1de49a24d16049dfa8d65e3d3907d" +deps = ["Artifacts", "ClimaComms", "Dates"] +git-tree-sha1 = "ae6e4d3223ecb29d3f3d9c5f82b622bae12f3bff" uuid = "b3f4f4ca-9299-4f7f-bd9b-81e1242a7513" -version = "0.1.18" -weakdeps = ["Adapt", "CUDA", "ClimaComms", "ClimaCore", "ClimaCoreTempestRemap", "Interpolations", "NCDatasets"] +version = "0.1.19" +weakdeps = ["Adapt", "CUDA", "ClimaCore", "ClimaCoreTempestRemap", "Interpolations", "NCDatasets"] [deps.ClimaUtilities.extensions] - ClimaUtilitiesClimaCommsCUDAExt = ["ClimaComms", "CUDA"] - ClimaUtilitiesClimaCommsExt = "ClimaComms" + ClimaUtilitiesCUDAExt = "CUDA" ClimaUtilitiesClimaCoreExt = "ClimaCore" ClimaUtilitiesClimaCoreInterpolationsExt = ["ClimaCore", "Interpolations"] ClimaUtilitiesClimaCoreNCDatasetsExt = ["ClimaCore", "NCDatasets"] @@ -440,9 +439,9 @@ version = "0.1.13" [[deps.CloudMicrophysics]] deps = ["ClimaParams", "DocStringExtensions", "ForwardDiff", "HCubature", "LazyArtifacts", "QuadGK", "RootSolvers", "SpecialFunctions", "Thermodynamics"] -git-tree-sha1 = "8f93d0c730dd4f41fade18a1954abf1eb5ac69ce" +git-tree-sha1 = "e3b2ae212b68aea23d11c03300abb1268a56af87" uuid = "6a9e3e04-43cd-43ba-94b9-e8782df3c71b" -version = "0.22.4" +version = "0.22.5" [deps.CloudMicrophysics.extensions] EmulatorModelsExt = ["DataFrames", "MLJ"] @@ -519,6 +518,11 @@ git-tree-sha1 = "cda2cfaebb4be89c9084adaca7dd7333369715c5" uuid = "bbf7d656-a473-5ed7-a52c-81e309532950" version = "0.3.1" +[[deps.CommonWorldInvalidations]] +git-tree-sha1 = "ae52d1c52048455e85a387fbee9be553ec2b68d0" +uuid = "f70d9fcc-98c5-4d4a-abd7-e4cdeebd8ca8" +version = "1.0.0" + [[deps.Compat]] deps = ["TOML", "UUIDs"] git-tree-sha1 = "8ae8d32e09f0dcf42a36b90d4e17f5dd2e4c4215" @@ -608,10 +612,10 @@ deps = ["Printf"] uuid = "ade2ca70-3891-5945-98fb-dc099432e06a" [[deps.DelaunayTriangulation]] -deps = ["AdaptivePredicates", "EnumX", "ExactPredicates", "PrecompileTools", "Random"] -git-tree-sha1 = "89df54fbe66e5872d91d8c2cd3a375f660c3fd64" +deps = ["AdaptivePredicates", "EnumX", "ExactPredicates", "Random"] +git-tree-sha1 = "e1371a23fd9816080c828d0ce04373857fe73d33" uuid = "927a84f5-c5f4-47a5-9785-b46e178433df" -version = "1.6.1" +version = "1.6.3" [[deps.DelimitedFiles]] deps = ["Mmap"] @@ -620,10 +624,10 @@ uuid = "8bb1440f-4735-579b-a4ab-409b98df4dab" version = "1.9.1" [[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 = "d1e8a4642e28b0945bde6e2e1ac569b9e0abd728" +deps = ["ArrayInterface", "ConcreteStructs", "DataStructures", "DocStringExtensions", "EnumX", "EnzymeCore", "FastBroadcast", "FastClosures", "FastPower", "ForwardDiff", "FunctionWrappers", "FunctionWrappersWrappers", "LinearAlgebra", "Logging", "Markdown", "MuladdMacro", "Parameters", "PreallocationTools", "PrecompileTools", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SciMLOperators", "SciMLStructures", "Setfield", "Static", "StaticArraysCore", "Statistics", "TruncatedStacktraces"] +git-tree-sha1 = "b7dbeaa770bad0980ddddf606de814cff2acb3bc" uuid = "2b5f629d-d688-5b77-993f-72d75c75574e" -version = "6.151.5" +version = "6.160.0" [deps.DiffEqBase.extensions] DiffEqBaseCUDAExt = "CUDA" @@ -635,6 +639,7 @@ version = "6.151.5" DiffEqBaseMeasurementsExt = "Measurements" DiffEqBaseMonteCarloMeasurementsExt = "MonteCarloMeasurements" DiffEqBaseReverseDiffExt = "ReverseDiff" + DiffEqBaseSparseArraysExt = "SparseArrays" DiffEqBaseTrackerExt = "Tracker" DiffEqBaseUnitfulExt = "Unitful" @@ -648,6 +653,7 @@ version = "6.151.5" Measurements = "eff96d63-e80a-5855-80a2-b1b0885c5ab7" MonteCarloMeasurements = "0987c9cc-fe09-11e8-30f0-b96dd679fdca" ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" + SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" Unitful = "1986cc42-f94f-5a68-af5c-568840ba703d" @@ -712,9 +718,9 @@ uuid = "4e289a0a-7415-4d19-859d-a7e5c4648b56" version = "1.0.4" [[deps.EnzymeCore]] -git-tree-sha1 = "8f205a601760f4798a10f138c3940f0451d95188" +git-tree-sha1 = "2c366bfe21936e8f44b607eb86a1f4c110f0d841" uuid = "f151be2c-9106-41f4-ab19-57ee4f262869" -version = "0.7.8" +version = "0.8.7" weakdeps = ["Adapt"] [deps.EnzymeCore.extensions] @@ -788,6 +794,27 @@ git-tree-sha1 = "fd923962364b645f3719855c88f7074413a6ad92" uuid = "442a2c76-b920-505d-bb47-c5924d526838" version = "1.0.2" +[[deps.FastPower]] +git-tree-sha1 = "58c3431137131577a7c379d00fea00be524338fb" +uuid = "a4df4552-cc26-4903-aec0-212e50a0e84b" +version = "1.1.1" + + [deps.FastPower.extensions] + FastPowerEnzymeExt = "Enzyme" + FastPowerForwardDiffExt = "ForwardDiff" + FastPowerMeasurementsExt = "Measurements" + FastPowerMonteCarloMeasurementsExt = "MonteCarloMeasurements" + FastPowerReverseDiffExt = "ReverseDiff" + FastPowerTrackerExt = "Tracker" + + [deps.FastPower.weakdeps] + Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9" + ForwardDiff = "f6369f11-7733-5829-9624-2563aa707210" + Measurements = "eff96d63-e80a-5855-80a2-b1b0885c5ab7" + MonteCarloMeasurements = "0987c9cc-fe09-11e8-30f0-b96dd679fdca" + ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" + Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" + [[deps.FastRounding]] deps = ["ErrorfreeArithmetic", "LinearAlgebra"] git-tree-sha1 = "6344aa18f654196be82e62816935225b3b9abe44" @@ -796,9 +823,15 @@ version = "0.3.1" [[deps.FileIO]] deps = ["Pkg", "Requires", "UUIDs"] -git-tree-sha1 = "91e0e5c68d02bcdaae76d3c8ceb4361e8f28d2e9" +git-tree-sha1 = "2dd20384bf8c6d411b5c7370865b1e9b26cb2ea3" uuid = "5789e2e9-d7fb-5bc7-8068-2c6fae9b9549" -version = "1.16.5" +version = "1.16.6" + + [deps.FileIO.extensions] + HTTPExt = "HTTP" + + [deps.FileIO.weakdeps] + HTTP = "cd3eb016-35fb-5094-929b-558a96fad6f3" [[deps.FilePaths]] deps = ["FilePathsBase", "MacroTools", "Reexport", "Requires"] @@ -867,15 +900,15 @@ version = "4.1.1" [[deps.FreeType2_jll]] deps = ["Artifacts", "Bzip2_jll", "JLLWrappers", "Libdl", "Zlib_jll"] -git-tree-sha1 = "5c1d8ae0efc6c2e7b1fc502cbe25def8f661b7bc" +git-tree-sha1 = "fa8e19f44de37e225aa0f1695bc223b05ed51fb4" uuid = "d7e528f0-a631-5988-bf34-fe36492bcfd7" -version = "2.13.2+0" +version = "2.13.3+0" [[deps.FreeTypeAbstraction]] deps = ["ColorVectorSpace", "Colors", "FreeType", "GeometryBasics"] -git-tree-sha1 = "77e2b094e61d939f9626181ab23d0b76e78f9fd3" +git-tree-sha1 = "d52e255138ac21be31fa633200b65e4e71d26802" uuid = "663a7486-cb36-511b-a19d-713bb74d65c9" -version = "0.10.5" +version = "0.10.6" [[deps.FriBidi_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -898,11 +931,6 @@ version = "0.1.3" deps = ["Random"] uuid = "9fa8497b-333b-5362-9e8d-4d0656e87820" -[[deps.GMP_jll]] -deps = ["Artifacts", "Libdl"] -uuid = "781609d7-10c4-51f6-84f2-b8444358ff6d" -version = "6.2.1+6" - [[deps.GPUArrays]] deps = ["Adapt", "GPUArraysCore", "LLVM", "LinearAlgebra", "Printf", "Random", "Reexport", "Serialization", "Statistics"] git-tree-sha1 = "62ee71528cca49be797076a76bdc654a170a523e" @@ -963,21 +991,15 @@ version = "0.1.0" [[deps.Glib_jll]] deps = ["Artifacts", "Gettext_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Libiconv_jll", "Libmount_jll", "PCRE2_jll", "Zlib_jll"] -git-tree-sha1 = "674ff0db93fffcd11a3573986e550d66cd4fd71f" +git-tree-sha1 = "b36c7e110080ae48fdef61b0c31e6b17ada23b33" uuid = "7746bdde-850d-59dc-9ae8-88ece973131d" -version = "2.80.5+0" +version = "2.82.2+0" [[deps.Glob]] git-tree-sha1 = "97285bbd5230dd766e9ef6749b80fc617126d496" uuid = "c27321d9-0574-5035-807b-f59d2c89b15c" version = "1.3.1" -[[deps.GnuTLS_jll]] -deps = ["Artifacts", "GMP_jll", "JLLWrappers", "Libdl", "Nettle_jll", "P11Kit_jll", "Zlib_jll"] -git-tree-sha1 = "383db7d3f900f4c1f47a8a04115b053c095e48d3" -uuid = "0951126a-58fd-58f1-b5b3-b08c7c4a876d" -version = "3.8.4+0" - [[deps.Graphics]] deps = ["Colors", "LinearAlgebra", "NaNMath"] git-tree-sha1 = "a641238db938fff9b2f60d08ed9030387daf428c" @@ -986,15 +1008,15 @@ version = "1.1.3" [[deps.Graphite2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "344bf40dcab1073aca04aa0df4fb092f920e4011" +git-tree-sha1 = "01979f9b37367603e2848ea225918a3b3861b606" uuid = "3b182d85-2403-5c21-9c21-1e1f0cc25472" -version = "1.3.14+0" +version = "1.3.14+1" [[deps.GridLayoutBase]] deps = ["GeometryBasics", "InteractiveUtils", "Observables"] -git-tree-sha1 = "6f93a83ca11346771a93bbde2bdad2f65b61498f" +git-tree-sha1 = "dc6bed05c15523624909b3953686c5f5ffa10adc" uuid = "3955a311-db13-416c-9275-1d80ed98e5e9" -version = "0.10.2" +version = "0.11.1" [[deps.Grisu]] git-tree-sha1 = "53bb909d1151e57e2484c3d1b53e19552b887fb2" @@ -1130,13 +1152,11 @@ deps = ["Adapt", "AxisAlgorithms", "ChainRulesCore", "LinearAlgebra", "OffsetArr git-tree-sha1 = "88a101217d7cb38a7b481ccd50d21876e1d1b0e0" uuid = "a98d9a8b-a2ab-59e6-89dd-64a1c18fca59" version = "0.15.1" +weakdeps = ["Unitful"] [deps.Interpolations.extensions] InterpolationsUnitfulExt = "Unitful" - [deps.Interpolations.weakdeps] - Unitful = "1986cc42-f94f-5a68-af5c-568840ba703d" - [[deps.IntervalArithmetic]] deps = ["CRlibm", "FastRounding", "LinearAlgebra", "Markdown", "Random", "RecipesBase", "RoundingEmulator", "SetRounding", "StaticArrays"] git-tree-sha1 = "5ab7744289be503d76a944784bac3f2df7b809af" @@ -1206,9 +1226,9 @@ version = "0.9.12" [[deps.JLD2]] deps = ["FileIO", "MacroTools", "Mmap", "OrderedCollections", "PrecompileTools", "Requires", "TranscodingStreams"] -git-tree-sha1 = "ce5737c0d4490b0e0040b5dc77fbb6a351ddf188" +git-tree-sha1 = "f1a1c1037af2a4541ea186b26b0c0e7eeaad232b" uuid = "033835bb-8acc-5ee8-8aae-3f567f8a3819" -version = "0.5.8" +version = "0.5.10" [[deps.JLLWrappers]] deps = ["Artifacts", "Preferences"] @@ -1236,9 +1256,9 @@ version = "3.0.4+0" [[deps.JuliaInterpreter]] deps = ["CodeTracking", "InteractiveUtils", "Random", "UUIDs"] -git-tree-sha1 = "fc8504eca188aaae4345649ca6105806bc584b70" +git-tree-sha1 = "10da5154188682e5c0726823c2b5125957ec3778" uuid = "aa1ae85d-cabe-5617-a682-6adf51b2e16a" -version = "0.9.37" +version = "0.9.38" [[deps.JuliaNVTXCallbacks_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1413,9 +1433,9 @@ version = "1.17.0+1" [[deps.Libmount_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "0c4f9c4f1a50d8f35048fa0532dabbadf702f81e" +git-tree-sha1 = "84eef7acd508ee5b3e956a2ae51b05024181dee0" uuid = "4b2f31a3-9ecc-558c-b454-b3730dcb73e9" -version = "2.40.1+0" +version = "2.40.2+0" [[deps.Libtiff_jll]] deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "LERC_jll", "Libdl", "XZ_jll", "Zlib_jll", "Zstd_jll"] @@ -1425,9 +1445,9 @@ version = "4.7.0+0" [[deps.Libuuid_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "5ee6203157c120d79034c748a2acba45b82b8807" +git-tree-sha1 = "edbf5309f9ddf1cab25afc344b1e8150b7c832f9" uuid = "38a345b3-de98-5d2b-a5d3-14cd9215e700" -version = "2.40.1+0" +version = "2.40.2+0" [[deps.LightXML]] deps = ["Libdl", "XML2_jll"] @@ -1482,9 +1502,9 @@ uuid = "56ddb016-857b-54e1-b83d-db4d58db5568" [[deps.LoweredCodeUtils]] deps = ["JuliaInterpreter"] -git-tree-sha1 = "260dc274c1bc2cb839e758588c63d9c8b5e639d1" +git-tree-sha1 = "688d6d9e098109051ae33d126fcfc88c4ce4a021" uuid = "6f1432cf-f94c-5a45-995e-cdbf5db27b0b" -version = "3.0.5" +version = "3.1.0" [[deps.Lz4_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -1542,16 +1562,16 @@ uuid = "1914dd2f-81c6-5fcd-8719-6d5c9610ff09" version = "0.5.13" [[deps.Makie]] -deps = ["Animations", "Base64", "CRC32c", "ColorBrewer", "ColorSchemes", "ColorTypes", "Colors", "Contour", "DelaunayTriangulation", "Distributions", "DocStringExtensions", "Downloads", "FFMPEG_jll", "FileIO", "FilePaths", "FixedPointNumbers", "Format", "FreeType", "FreeTypeAbstraction", "GeometryBasics", "GridLayoutBase", "ImageIO", "InteractiveUtils", "IntervalSets", "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"] -git-tree-sha1 = "4d49c9ee830eec99d3e8de2425ff433ece7cc1bc" +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"] +git-tree-sha1 = "5e4e0e027642293da251bf35dac408d692ccba8b" uuid = "ee78f7c6-11fb-53f2-987a-cfe4a2b5a57a" -version = "0.20.10" +version = "0.21.16" [[deps.MakieCore]] -deps = ["Observables", "REPL"] -git-tree-sha1 = "248b7a4be0f92b497f7a331aed02c1e9a878f46b" +deps = ["ColorTypes", "GeometryBasics", "IntervalSets", "Observables"] +git-tree-sha1 = "ae4dbe0fcf1594ed98594e5f4ee685295a2a6f74" uuid = "20f20a25-4f0e-4fdf-b5d1-57303727442b" -version = "0.7.3" +version = "0.8.10" [[deps.ManualMemory]] git-tree-sha1 = "bcaef4fc7a0cfe2cba636d84cda54b5e4e4ca3cd" @@ -1569,9 +1589,9 @@ uuid = "d6f4376e-aef5-505a-96c1-9c027394607a" [[deps.MathTeXEngine]] deps = ["AbstractTrees", "Automa", "DataStructures", "FreeTypeAbstraction", "GeometryBasics", "LaTeXStrings", "REPL", "RelocatableFolders", "UnicodeFun"] -git-tree-sha1 = "96ca8a313eb6437db5ffe946c457a401bbb8ce1d" +git-tree-sha1 = "f45c8916e8385976e1ccd055c9874560c257ab13" uuid = "0a4f8689-d25c-4efe-a92b-7142dfc1aa53" -version = "0.5.7" +version = "0.6.2" [[deps.MbedTLS_jll]] deps = ["Artifacts", "Libdl"] @@ -1580,9 +1600,9 @@ version = "2.28.2+1" [[deps.MicrosoftMPI_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "f12a29c4400ba812841c6ace3f4efbb6dbb3ba01" +git-tree-sha1 = "bc95bf4149bf535c09602e3acdf950d9b4376227" uuid = "9237b28f-5490-5468-be7b-bb81f5f5e6cf" -version = "10.1.4+2" +version = "10.1.4+3" [[deps.Missings]] deps = ["DataAPI"] @@ -1625,9 +1645,9 @@ version = "0.14.6" [[deps.NVTX]] deps = ["Colors", "JuliaNVTXCallbacks_jll", "Libdl", "NVTX_jll"] -git-tree-sha1 = "53046f0483375e3ed78e49190f1154fa0a4083a1" +git-tree-sha1 = "6a6f8bfaa91bb2e40ff562ab9f30dc827741daef" uuid = "5da4648a-3479-48b8-97b9-01cb529c0a1f" -version = "0.3.4" +version = "0.3.5" [[deps.NVTX_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1643,9 +1663,9 @@ version = "1.0.2" [[deps.NaNStatistics]] deps = ["PrecompileTools", "Static", "StaticArrayInterface"] -git-tree-sha1 = "d86d1c878cdab73ec06da5eb348967992879507f" +git-tree-sha1 = "f2a685149d4e7d62865babd606092f8e89a6d8f8" uuid = "b946abbf-3ea7-4610-9019-9858bfdeaf2d" -version = "0.6.42" +version = "0.6.43" [[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"] @@ -1659,12 +1679,6 @@ git-tree-sha1 = "d92b107dbb887293622df7697a2223f9f8176fcd" uuid = "f09324ee-3d7c-5217-9330-fc30815ba969" version = "1.1.1" -[[deps.Nettle_jll]] -deps = ["Artifacts", "GMP_jll", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "eca63e3847dad608cfa6a3329b95ef674c7160b4" -uuid = "4c82536e-c426-54e4-b420-14f461c4ed8b" -version = "3.7.2+0" - [[deps.NetworkOptions]] uuid = "ca575930-c2e3-43a9-ace4-1e988b2c1908" version = "1.2.0" @@ -1725,9 +1739,9 @@ version = "0.8.1+2" [[deps.OpenMPI_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "Hwloc_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML", "Zlib_jll"] -git-tree-sha1 = "bfce6d523861a6c562721b262c0d1aaeead2647f" +git-tree-sha1 = "2dace87e14256edb1dd0724ab7ba831c779b96bd" uuid = "fe0851c0-eecd-5654-98d4-656369965a5c" -version = "5.0.5+0" +version = "5.0.6+0" [[deps.OpenSSL_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -1748,15 +1762,9 @@ uuid = "91d4177d-7536-5919-b921-800302f37372" version = "1.3.3+0" [[deps.OrderedCollections]] -git-tree-sha1 = "dfdf5519f235516220579f949664f1bf44e741c5" +git-tree-sha1 = "12f1439c4f986bb868acda6ea33ebc78e19b95ad" uuid = "bac558e1-5e72-5ebc-8fee-abe8a469f55d" -version = "1.6.3" - -[[deps.P11Kit_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "2cd396108e178f3ae8dedbd8e938a18726ab2fbf" -uuid = "c2071276-7c44-58a7-b746-946036e04d0a" -version = "0.24.1+0" +version = "1.7.0" [[deps.PCRE2_jll]] deps = ["Artifacts", "Libdl"] @@ -1783,9 +1791,9 @@ weakdeps = ["Requires", "TOML"] [[deps.Packing]] deps = ["GeometryBasics"] -git-tree-sha1 = "ec3edfe723df33528e085e632414499f26650501" +git-tree-sha1 = "bc5bf2ea3d5351edf285a06b0016788a121ce92c" uuid = "19eb6ba3-879d-56ad-ad62-d5c202156566" -version = "0.5.0" +version = "0.5.1" [[deps.PaddedViews]] deps = ["OffsetArrays"] @@ -1996,9 +2004,9 @@ version = "1.3.4" [[deps.RecursiveArrayTools]] deps = ["Adapt", "ArrayInterface", "DocStringExtensions", "GPUArraysCore", "IteratorInterfaceExtensions", "LinearAlgebra", "RecipesBase", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables"] -git-tree-sha1 = "6f4dca5fd8e97087a76b7ab8384d1c3086ace0b7" +git-tree-sha1 = "32f824db4e5bab64e25a12b22483a30a6b813d08" uuid = "731186ca-8d62-57ce-b412-fbd966d074cd" -version = "3.27.3" +version = "3.27.4" [deps.RecursiveArrayTools.extensions] RecursiveArrayToolsFastBroadcastExt = "FastBroadcast" @@ -2007,6 +2015,7 @@ version = "3.27.3" RecursiveArrayToolsMonteCarloMeasurementsExt = "MonteCarloMeasurements" RecursiveArrayToolsReverseDiffExt = ["ReverseDiff", "Zygote"] RecursiveArrayToolsSparseArraysExt = ["SparseArrays"] + RecursiveArrayToolsStructArraysExt = "StructArrays" RecursiveArrayToolsTrackerExt = "Tracker" RecursiveArrayToolsZygoteExt = "Zygote" @@ -2017,6 +2026,7 @@ version = "3.27.3" MonteCarloMeasurements = "0987c9cc-fe09-11e8-30f0-b96dd679fdca" ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" + StructArrays = "09ab397b-f2b6-538f-b94a-2f83cf4a842a" Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" @@ -2083,9 +2093,9 @@ 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 = "cacc7bc54bab8749b1fc1032c4911fe80cffb959" +git-tree-sha1 = "6f156f48d3603e8023e59917547b141218f2656d" uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462" -version = "2.61.0" +version = "2.64.0" [deps.SciMLBase.extensions] SciMLBaseChainRulesCoreExt = "ChainRulesCore" @@ -2119,9 +2129,9 @@ weakdeps = ["SparseArrays", "StaticArraysCore"] [[deps.SciMLStructures]] deps = ["ArrayInterface"] -git-tree-sha1 = "25514a6f200219cd1073e4ff23a6324e4a7efe64" +git-tree-sha1 = "0444a37a25fab98adbd90baa806ee492a3af133a" uuid = "53ae85a6-f571-4167-b2af-e1d143709226" -version = "1.5.0" +version = "1.6.1" [[deps.Scratch]] deps = ["Dates"] @@ -2220,10 +2230,10 @@ uuid = "cae243ae-269e-4f55-b966-ac2d0dc13c15" version = "0.1.1" [[deps.Static]] -deps = ["IfElse"] -git-tree-sha1 = "d2fdac9ff3906e27f7a618d47b676941baa6c80c" +deps = ["CommonWorldInvalidations", "IfElse", "PrecompileTools"] +git-tree-sha1 = "87d51a3ee9a4b0d2fe054bdd3fc2436258db2603" uuid = "aedffcd0-7271-4cad-89d0-dc628f76c6d3" -version = "0.8.10" +version = "1.1.1" [[deps.StaticArrayInterface]] deps = ["ArrayInterface", "Compat", "IfElse", "LinearAlgebra", "PrecompileTools", "Static"] @@ -2423,11 +2433,6 @@ git-tree-sha1 = "0c45878dcfdcfa8480052b6ab162cdd138781742" uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa" version = "0.11.3" -[[deps.Tricks]] -git-tree-sha1 = "7822b97e99a1672bfb1b49b668a6d46d58d8cbcb" -uuid = "410a4b4d-49e4-4fbc-ab6d-cb71b17b3775" -version = "0.1.9" - [[deps.TriplotBase]] git-tree-sha1 = "4d4ed7f294cda19382ff7de4c137d24d16adc89b" uuid = "981d1d27-644d-49a2-9326-4793e63143c3" @@ -2457,6 +2462,17 @@ git-tree-sha1 = "53915e50200959667e78a92a418594b428dffddf" uuid = "1cfade01-22cf-5700-b092-accc4b62d6e1" version = "0.4.1" +[[deps.Unitful]] +deps = ["Dates", "LinearAlgebra", "Random"] +git-tree-sha1 = "d95fe458f26209c66a187b1114df96fd70839efd" +uuid = "1986cc42-f94f-5a68-af5c-568840ba703d" +version = "1.21.0" +weakdeps = ["ConstructionBase", "InverseFunctions"] + + [deps.Unitful.extensions] + ConstructionBaseUnitfulExt = "ConstructionBase" + InverseFunctionsUnitfulExt = "InverseFunctions" + [[deps.Unrolled]] deps = ["MacroTools"] git-tree-sha1 = "6cc9d682755680e0f0be87c56392b7651efc2c7b" @@ -2520,9 +2536,9 @@ version = "2.13.5+0" [[deps.XSLT_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgcrypt_jll", "Libgpg_error_jll", "Libiconv_jll", "XML2_jll", "Zlib_jll"] -git-tree-sha1 = "a54ee957f4c86b526460a720dbc882fa5edcbefc" +git-tree-sha1 = "7d1671acbe47ac88e981868a078bd6b4e27c5191" uuid = "aed1982a-8fda-507f-9586-7b0439959a61" -version = "1.1.41+0" +version = "1.1.42+0" [[deps.XZ_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -2538,15 +2554,15 @@ version = "1.8.6+0" [[deps.Xorg_libXau_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "6035850dcc70518ca32f012e46015b9beeda49d8" +git-tree-sha1 = "2b0e27d52ec9d8d483e2ca0b72b3cb1a8df5c27a" uuid = "0c0b7dd1-d40b-584c-a123-a41640f87eec" -version = "1.0.11+0" +version = "1.0.11+1" [[deps.Xorg_libXdmcp_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "34d526d318358a859d7de23da945578e8e8727b7" +git-tree-sha1 = "02054ee01980c90297412e4c809c8694d7323af3" uuid = "a3789734-cfe1-5b06-b2d0-1dd0d9d62d05" -version = "1.1.4+0" +version = "1.1.4+1" [[deps.Xorg_libXext_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libX11_jll"] @@ -2562,9 +2578,9 @@ version = "0.9.11+0" [[deps.Xorg_libpthread_stubs_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "8fdda4c692503d44d04a0603d9ac0982054635f9" +git-tree-sha1 = "fee57a273563e273f0f53275101cd41a8153517a" uuid = "14d82f49-176c-5ed1-bb49-ad3f5cbd8c74" -version = "0.1.1+0" +version = "0.1.1+1" [[deps.Xorg_libxcb_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "XSLT_jll", "Xorg_libXau_jll", "Xorg_libXdmcp_jll", "Xorg_libpthread_stubs_jll"] @@ -2574,9 +2590,9 @@ version = "1.17.0+0" [[deps.Xorg_xtrans_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "e92a1a012a10506618f10b7047e478403a046c77" +git-tree-sha1 = "b9ead2d2bdb27330545eb14234a2e300da61232e" uuid = "c5fb5394-a638-5e4d-96e5-b29de1b5cf10" -version = "1.5.0+0" +version = "1.5.0+1" [[deps.YAML]] deps = ["Base64", "Dates", "Printf", "StringEncodings"] @@ -2595,6 +2611,12 @@ git-tree-sha1 = "555d1076590a6cc2fdee2ef1469451f872d8b41b" uuid = "3161d3a3-bdf6-5164-811a-617609db77b4" version = "1.5.6+1" +[[deps.demumble_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "6498e3581023f8e530f34760d18f75a69e3a4ea8" +uuid = "1e29f10c-031c-5a83-9565-69cddfc27673" +version = "1.3.0+0" + [[deps.isoband_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] git-tree-sha1 = "51b5eeb3f98367157a7a12a1fb0aa5328946c03c" @@ -2655,10 +2677,10 @@ uuid = "c5f90fcd-3b7e-5836-afba-fc50a0988cb2" version = "1.4.0+0" [[deps.libzip_jll]] -deps = ["Artifacts", "Bzip2_jll", "GnuTLS_jll", "JLLWrappers", "Libdl", "XZ_jll", "Zlib_jll", "Zstd_jll"] -git-tree-sha1 = "668ac0297e6bd8f4d53dfdcd3ace71f2e00f4a35" +deps = ["Artifacts", "Bzip2_jll", "JLLWrappers", "Libdl", "OpenSSL_jll", "XZ_jll", "Zlib_jll", "Zstd_jll"] +git-tree-sha1 = "e797fa066eba69f4c0585ffbd81bc780b5118ce2" uuid = "337d8026-41b4-5cde-a456-74a10e5b31d1" -version = "1.11.1+0" +version = "1.11.2+0" [[deps.nghttp2_jll]] deps = ["Artifacts", "Libdl"] diff --git a/examples/Project.toml b/examples/Project.toml index 9f60d9354c1..af7c481e38a 100644 --- a/examples/Project.toml +++ b/examples/Project.toml @@ -61,7 +61,7 @@ Thermodynamics = "b60c26fb-14c3-4610-9d3e-2d17fe7ff00c" YAML = "ddb6d928-2868-570f-bddf-ab3f9cf99eb6" [compat] -CairoMakie = "0.10, 0.11" +CairoMakie = "0.10, 0.11, 0.12" ClimaAnalysis = "0.5.7" ClimaCoreMakie = "0.3, 0.4" ClimaCorePlots = "0.2" diff --git a/post_processing/ci_plots.jl b/post_processing/ci_plots.jl index df2c26072ea..fe8940b844f 100644 --- a/post_processing/ci_plots.jl +++ b/post_processing/ci_plots.jl @@ -42,7 +42,7 @@ import CairoMakie import CairoMakie.Makie import ClimaAnalysis import ClimaAnalysis: Visualize as viz -import ClimaAnalysis: SimDir, slice, read_var, average_xy +import ClimaAnalysis: SimDir, slice, read_var, average_xy, window, average_time import ClimaAnalysis.Utils: kwargs as ca_kwargs import ClimaCoreSpectra: power_spectrum_2d @@ -577,6 +577,7 @@ end function make_plots( ::Val{:box_density_current_test}, + ::Val{:box_rising_thermal_test}, output_paths::Vector{<:AbstractString}, ) simdirs = SimDir.(output_paths) @@ -1065,6 +1066,100 @@ function make_plots(::Aquaplanet1MPlots, output_paths::Vector{<:AbstractString}) ) end +LESBoxPlots = Union{Val{:les_box}} + +""" + plot_les_vert_profile!(grid_loc, var_group) + +Helper function for `make_plots_generic`. Takes a list of variables and plots +them on the same axis. +""" +function plot_les_vert_profile!(grid_loc, var_group) + z = var_group[1].dims["z"] + units = var_group[1].attributes["units"] + ax = CairoMakie.Axis( + grid_loc[1, 1], + ylabel = "z [$(var_group[1].dim_attributes["z"]["units"])]", + xlabel = "$(short_name(var_group[1])) [$units]", + title = parse_var_attributes(var_group[1]), + ) + + for var in var_group + CairoMakie.lines!(ax, var.data, z, label = short_name(var)) + end + length(var_group) > 1 && Makie.axislegend(ax) +end + +function make_plots( + sim_type::Union{LESBoxPlots}, + output_paths::Vector{<:AbstractString}, +) + simdirs = SimDir.(output_paths) + + reduction = "inst" + short_names = [ + "wa", + "ua", + "va", + "ta", + "thetaa", + "ha", + "hus", + "hur", + "cl", + "clw", + "cli", + ] + short_names = short_names ∩ collect(keys(simdirs[1].vars)) + + # Window average from instantaneous snapshots? + function horizontal_average(var) + return average_xy(var) + end + function windowed_reduction(var) + hours = 3600.0 + window_end = last(var.dims["time"]) + window_start = window_end - 2hours + var_window = ClimaAnalysis.window( + var, + "time"; + left = window_start, + right = window_end, + ) + var_reduced = horizontal_average(average_time(var_window)) + return var_reduced + end + + var_groups_xyt_reduced = + map_comparison(simdirs, short_names) do simdir, short_name + return [get(simdir; short_name, reduction) |> windowed_reduction] + end + + var_groups_xy_reduced = + map_comparison(simdirs, short_names) do simdir, short_name + return [get(simdir; short_name, reduction) |> horizontal_average] + end + + tmp_file = make_plots_generic( + output_paths, + var_groups_xyt_reduced, + output_name = "tmp"; + plot_fn = plot_les_vert_profile!, + MAX_NUM_COLS = 2, + MAX_NUM_ROWS = 4, + ) + + make_plots_generic( + output_paths, + vcat(var_groups_xy_reduced...), + plot_fn = plot_parsed_attribute_title!, + summary_files = [tmp_file], + MAX_NUM_COLS = 2, + MAX_NUM_ROWS = 4, + ) +end + + EDMFBoxPlots = Union{ Val{:diagnostic_edmfx_gabls_box}, Val{:diagnostic_edmfx_bomex_box}, @@ -1097,7 +1192,6 @@ EDMFBoxPlotsWithPrecip = Union{ Val{:diagnostic_edmfx_trmm_stretched_box}, } - """ plot_edmf_vert_profile!(grid_loc, var_group) diff --git a/src/ClimaAtmos.jl b/src/ClimaAtmos.jl index 13a447ba660..416d29f62b6 100644 --- a/src/ClimaAtmos.jl +++ b/src/ClimaAtmos.jl @@ -111,6 +111,13 @@ include( ) include(joinpath("parameterized_tendencies", "sponge", "rayleigh_sponge.jl")) include(joinpath("parameterized_tendencies", "sponge", "viscous_sponge.jl")) +include( + joinpath( + "parameterized_tendencies", + "les_sgs_models", + "smagorinsky_lilly.jl", + ), +) include(joinpath("prognostic_equations", "advection.jl")) include(joinpath("cache", "temporary_quantities.jl")) diff --git a/src/cache/precomputed_quantities.jl b/src/cache/precomputed_quantities.jl index 5d41912fd47..6acf4fa2ada 100644 --- a/src/cache/precomputed_quantities.jl +++ b/src/cache/precomputed_quantities.jl @@ -156,6 +156,19 @@ function precomputed_quantities(Y, atmos) ᶜqᵣ = similar(Y.c, FT), ᶜqₛ = similar(Y.c, FT), ) : (;) + smagorinsky_lilly_quantities = + if atmos.smagorinsky_lilly isa SmagorinskyLilly + uvw_vec = UVW(FT(0), FT(0), FT(0)) + (; + ᶜτ_smag = similar(Y.c, typeof(uvw_vec * uvw_vec')), + ᶠτ_smag = similar(Y.f, typeof(uvw_vec * uvw_vec')), + ᶜD_smag = similar(Y.c, FT), + ᶠD_smag = similar(Y.f, FT), + ) + else + (;) + end + return (; gs_quantities..., sgs_quantities..., @@ -164,6 +177,7 @@ function precomputed_quantities(Y, atmos) vert_diff_quantities..., precipitation_quantities..., cloud_diagnostics_tuple, + smagorinsky_lilly_quantities..., ) end @@ -633,6 +647,10 @@ NVTX.@annotate function set_precomputed_quantities!(Y, p, t) set_cloud_fraction!(Y, p, moisture_model, cloud_model) end + if p.atmos.smagorinsky_lilly isa SmagorinskyLilly + set_smagorinsky_lilly_precomputed_quantities!(Y, p) + end + return nothing end diff --git a/src/cache/temporary_quantities.jl b/src/cache/temporary_quantities.jl index 4482e861475..cee88bc51d3 100644 --- a/src/cache/temporary_quantities.jl +++ b/src/cache/temporary_quantities.jl @@ -10,6 +10,7 @@ function temporary_quantities(Y, atmos) FT = Spaces.undertype(center_space) CTh = CTh_vector_type(Y.c) + uvw_vec = UVW(FT(0), FT(0), FT(0)) return (; ᶠtemp_scalar = Fields.Field(FT, face_space), # ᶠp, ᶠρK_E ᶜtemp_scalar = Fields.Field(FT, center_space), # ᶜ1 @@ -45,14 +46,12 @@ function temporary_quantities(Y, atmos) face_space, ), # ᶠω¹²ʲs ᶠtemp_C123 = Fields.Field(C123{FT}, face_space), # χ₁₂₃ - ᶜtemp_UVWxUVW = Fields.Field( - typeof(UVW(FT(0), FT(0), FT(0)) * UVW(FT(0), FT(0), FT(0))'), - center_space, - ), # ᶜstrain_rate - ᶠtemp_UVWxUVW = Fields.Field( - typeof(UVW(FT(0), FT(0), FT(0)) * UVW(FT(0), FT(0), FT(0))'), - face_space, - ), # ᶠstrain_rate + ᶜtemp_UVW = Fields.Field(typeof(uvw_vec), center_space), # UVW(ᶜu) + ᶠtemp_UVW = Fields.Field(typeof(uvw_vec), face_space), # UVW(ᶠu³) + ᶜtemp_UVWxUVW = Fields.Field(typeof(uvw_vec * uvw_vec'), center_space), # ᶜstrain_rate + ᶠtemp_UVWxUVW = Fields.Field(typeof(uvw_vec * uvw_vec'), face_space), # ᶠstrain_rate + ᶜtemp_strain = Fields.Field(typeof(uvw_vec * uvw_vec'), center_space), # ᶜstrain_rate + ᶠtemp_strain = Fields.Field(typeof(uvw_vec * uvw_vec'), face_space), # ᶠstrain_rate # TODO: Remove this hack sfc_temp_C3 = Fields.Field(C3{FT}, Spaces.level(face_space, half)), # ρ_flux_χ # Implicit solver cache: diff --git a/src/parameterized_tendencies/les_sgs_models/smagorinsky_lilly.jl b/src/parameterized_tendencies/les_sgs_models/smagorinsky_lilly.jl new file mode 100644 index 00000000000..fb63815d129 --- /dev/null +++ b/src/parameterized_tendencies/les_sgs_models/smagorinsky_lilly.jl @@ -0,0 +1,174 @@ +##### +##### Smagorinsky Lilly Diffusion +##### + +import ClimaCore.Fields as Fields +import ClimaCore.Operators as Operators +import ClimaCore: Geometry + +""" + set_smagorinsky_lilly_precomputed_quantities!(Y, p) + +Compute the Smagorinsky-Lilly diffusivity tensors, `ᶜτ_smag`, `ᶠτ_smag`, `ᶜD_smag`, and `ᶠD_smag`. +Store in the precomputed quantities `p.precomputed`. + +The subgrid-scale momentum flux tensor is defined by `τ = -2 νₜ ∘ S`, where `νₜ` is the Smagorinsky-Lilly eddy viscosity +and `S` is the strain rate tensor. + +The turbulent diffusivity is defined as `D = νₜ / Pr_t`, where `Pr_t` is the turbulent Prandtl number for neutral +stratification. + +These quantities are computed for both cell centers and faces, with prefixes `ᶜ` and `ᶠ`, respectively. + + +# Arguments +- `Y`: The model state. +- `p`: The model parameters, e.g. `AtmosCache`. +""" +function set_smagorinsky_lilly_precomputed_quantities!(Y, p) + + (; atmos, precomputed, scratch, params) = p + (; Cs, Pr_t) = atmos.smagorinsky_lilly + (; ᶜu, ᶠu³, ᶜts, ᶜτ_smag, ᶠτ_smag, ᶜD_smag, ᶠD_smag) = precomputed + FT = eltype(Y) + grav = CAP.grav(params) + thermo_params = CAP.thermodynamics_params(params) + (; ᶜtemp_UVWxUVW, ᶠtemp_UVWxUVW, ᶜtemp_strain, ᶠtemp_strain) = scratch + (; ᶜtemp_scalar, ᶜtemp_scalar_2, ᶠtemp_scalar, ᶜtemp_UVW, ᶠtemp_UVW) = + scratch + + ∇ᵥuvw_boundary = Geometry.outer(Geometry.WVector(0), UVW(0, 0, 0)) + ᶠgradᵥ_uvw = Operators.GradientC2F( + bottom = Operators.SetGradient(∇ᵥuvw_boundary), + top = Operators.SetGradient(∇ᵥuvw_boundary), + ) + axis_uvw = (Geometry.UVWAxis(),) + + # Compute UVW velocities + ᶜu_uvw = @. ᶜtemp_UVW = UVW(ᶜu) + ᶠu_uvw = @. ᶠtemp_UVW = UVW(ᶠinterp(Y.c.uₕ)) + UVW(ᶠu³) + + # Gradients + ## cell centers + ∇ᶜu_uvw = @. ᶜtemp_UVWxUVW = Geometry.project(axis_uvw, ᶜgradᵥ(ᶠu_uvw)) # vertical component + @. ∇ᶜu_uvw += Geometry.project(axis_uvw, gradₕ(ᶜu_uvw)) # horizontal component + ## cell faces + ∇ᶠu_uvw = @. ᶠtemp_UVWxUVW = Geometry.project(axis_uvw, ᶠgradᵥ_uvw(ᶜu_uvw)) # vertical component + @. ∇ᶠu_uvw += Geometry.project(axis_uvw, gradₕ(ᶠu_uvw)) # horizontal component + + # Strain rate tensor + ᶜS = @. ᶜtemp_strain = (∇ᶜu_uvw + adjoint(∇ᶜu_uvw)) / 2 + ᶠS = @. ᶠtemp_strain = (∇ᶠu_uvw + adjoint(∇ᶠu_uvw)) / 2 + + # Stratification correction + ᶜθ_v = @. ᶜtemp_scalar = TD.virtual_pottemp(thermo_params, ᶜts) + ᶜ∇ᵥθ = @. ᶜtemp_scalar_2 = + Geometry.WVector(ᶜgradᵥ(ᶠinterp(ᶜθ_v))).components.data.:1 + ᶜN² = @. ᶜtemp_scalar = grav / ᶜθ_v * ᶜ∇ᵥθ + ᶜS_norm = @. ᶜtemp_scalar_2 = √(2 * CA.norm_sqr(ᶜS)) + + ᶜRi = @. ᶜtemp_scalar = ᶜN² / (ᶜS_norm^2 + eps(FT)) # Ri = N² / |S|² + ᶜfb = @. ᶜtemp_scalar = ifelse(ᶜRi ≤ 0, 1, max(0, 1 - ᶜRi / Pr_t)^(1 / 4)) + + # filter scale + h_space = Spaces.horizontal_space(axes(Y.c)) + Δ_xy = Spaces.node_horizontal_length_scale(h_space)^2 # Δ_x * Δ_y + ᶜΔ_z = Fields.Δz_field(Y.c) + ᶜΔ = @. ᶜtemp_scalar = ∛(Δ_xy * ᶜΔ_z) * ᶜfb + + # Smagorinsky-Lilly eddy viscosity + ᶜνₜ = @. ᶜtemp_scalar = Cs^2 * ᶜΔ^2 * ᶜS_norm + ᶠνₜ = @. ᶠtemp_scalar = ᶠinterp(ᶜνₜ) + + # Subgrid-scale momentum flux tensor, `τ = -2 νₜ ∘ S` + @. ᶜτ_smag = -2 * ᶜνₜ * ᶜS + @. ᶠτ_smag = -2 * ᶠνₜ * ᶠS + + # Turbulent diffusivity + @. ᶜD_smag = ᶜνₜ / Pr_t + @. ᶠD_smag = ᶠνₜ / Pr_t + + nothing +end + +horizontal_smagorinsky_lilly_tendency!(Yₜ, Y, p, t, ::Nothing) = nothing +vertical_smagorinsky_lilly_tendency!(Yₜ, Y, p, t, ::Nothing) = nothing + +function horizontal_smagorinsky_lilly_tendency!(Yₜ, Y, p, t, ::SmagorinskyLilly) + (; ᶜτ_smag, ᶠτ_smag, ᶜD_smag, ᶜspecific, ᶜh_tot) = p.precomputed + + ## Momentum tendencies + ᶠρ = @. p.scratch.ᶠtemp_scalar = ᶠinterp(Y.c.ρ) + @. Yₜ.c.uₕ -= C12(wdivₕ(Y.c.ρ * ᶜτ_smag) / Y.c.ρ) + @. Yₜ.f.u₃ -= C3(wdivₕ(ᶠρ * ᶠτ_smag) / ᶠρ) + + ## Total energy tendency + @. Yₜ.c.ρe_tot += wdivₕ(Y.c.ρ * ᶜD_smag * gradₕ(ᶜh_tot)) + + ## Tracer diffusion and associated mass changes + for (ᶜρχₜ, ᶜχ, χ_name) in CA.matching_subfields(Yₜ.c, ᶜspecific) + χ_name == :e_tot && continue + ᶜρχₜ_diffusion = + @. p.scratch.ᶜtemp_scalar = wdivₕ(Y.c.ρ * ᶜD_smag * gradₕ(ᶜχ)) + @. ᶜρχₜ += ᶜρχₜ_diffusion + # Rain and snow does not affect the mass + if χ_name ∉ (:q_rai, :q_sno) + @. Yₜ.c.ρ += ᶜρχₜ_diffusion + end + end + +end + +function vertical_smagorinsky_lilly_tendency!(Yₜ, Y, p, t, ::SmagorinskyLilly) + FT = eltype(Y) + (; sfc_temp_C3, ᶠtemp_scalar, ᶜtemp_scalar) = p.scratch + (; ᶜτ_smag, ᶠτ_smag, ᶠD_smag, ᶜspecific, ᶜh_tot, sfc_conditions) = + p.precomputed + (; ρ_flux_uₕ, ρ_flux_h_tot) = sfc_conditions + + # Define operators + ᶠgradᵥ = Operators.GradientC2F() # apply BCs to ᶜdivᵥ, which wraps ᶠgradᵥ + ᶜdivᵥ_uₕ = Operators.DivergenceF2C( + top = Operators.SetValue(C3(FT(0)) ⊗ C12(FT(0), FT(0))), + bottom = Operators.SetValue(ρ_flux_uₕ), + ) + ᶠdivᵥ = Operators.DivergenceC2F( + bottom = Operators.SetDivergence(FT(0)), + top = Operators.SetDivergence(FT(0)), + ) + top = Operators.SetValue(C3(FT(0))) + ᶜdivᵥ_ρe_tot = Operators.DivergenceF2C(; + top, + bottom = Operators.SetValue(ρ_flux_h_tot), + ) + + # Apply to tendencies + ## Horizontal momentum tendency + ᶠρ = @. ᶠtemp_scalar = ᶠinterp(Y.c.ρ) + @. Yₜ.c.uₕ -= C12(ᶜdivᵥ(ᶠρ * ᶠτ_smag) / Y.c.ρ) + ## Apply boundary condition for momentum flux + @. Yₜ.c.uₕ -= ᶜdivᵥ_uₕ(-(FT(0) * ᶠgradᵥ(Y.c.uₕ))) / Y.c.ρ + ## Vertical momentum tendency + @. Yₜ.f.u₃ -= C3(ᶠdivᵥ(Y.c.ρ * ᶜτ_smag) / ᶠρ) + + ## Total energy tendency + @. Yₜ.c.ρe_tot -= ᶜdivᵥ_ρe_tot(-(ᶠρ * ᶠD_smag * ᶠgradᵥ(ᶜh_tot))) + + ## Tracer diffusion and associated mass changes + sfc_zero = @. sfc_temp_C3 = C3(FT(0)) + for (ᶜρχₜ, ᶜχ, χ_name) in CA.matching_subfields(Yₜ.c, ᶜspecific) + χ_name == :e_tot && continue + + bottom = Operators.SetValue( + χ_name == :q_tot ? sfc_conditions.ρ_flux_q_tot : sfc_zero, + ) + ᶜdivᵥ_ρχ = Operators.DivergenceF2C(; top, bottom) + + ᶜ∇ᵥρD∇χₜ = @. ᶜtemp_scalar = ᶜdivᵥ_ρχ(-(ᶠρ * ᶠD_smag * ᶠgradᵥ(ᶜχ))) + @. ᶜρχₜ -= ᶜ∇ᵥρD∇χₜ + # Rain and snow does not affect the mass + if χ_name ∉ (:q_rai, :q_sno) + @. Yₜ.c.ρ -= ᶜ∇ᵥρD∇χₜ + end + end +end diff --git a/src/parameterized_tendencies/radiation/radiation.jl b/src/parameterized_tendencies/radiation/radiation.jl index 019f5930771..8804243bc08 100644 --- a/src/parameterized_tendencies/radiation/radiation.jl +++ b/src/parameterized_tendencies/radiation/radiation.jl @@ -365,9 +365,11 @@ function radiation_tendency!(Yₜ, Y, p, t, radiation_mode::RadiationDYCOMS) # Find the values of (z, ρ, q_tot) at the q_tot = 0.008 isoline, i.e., at # the level whose value of q_tot is closest to 0.008. + q_tot_isoline = FT(0.008) Operators.column_reduce!( (nt1, nt2) -> - abs(nt1.q_tot - FT(0.008)) < abs(nt2.q_tot - FT(0.008)) ? nt1 : nt2, + abs(nt1.q_tot - q_tot_isoline) < abs(nt2.q_tot - q_tot_isoline) ? + nt1 : nt2, isoline_z_ρ_q, Base.broadcasted(NT ∘ tuple, ᶜz, Y.c.ρ, ᶜspecific.q_tot), ) diff --git a/src/prognostic_equations/remaining_tendency.jl b/src/prognostic_equations/remaining_tendency.jl index d56ece72f83..a31344f1d91 100644 --- a/src/prognostic_equations/remaining_tendency.jl +++ b/src/prognostic_equations/remaining_tendency.jl @@ -86,6 +86,10 @@ NVTX.@annotate function additional_tendency!(Yₜ, Y, p, t) # NOTE: All ρa tendencies should be applied before calling this function pressure_work_tendency!(Yₜ, Y, p, t, p.atmos.turbconv_model) + sl = p.atmos.smagorinsky_lilly + horizontal_smagorinsky_lilly_tendency!(Yₜ, Y, p, t, sl) + vertical_smagorinsky_lilly_tendency!(Yₜ, Y, p, t, sl) + # NOTE: This will zero out all momentum tendencies in the edmfx advection test # please DO NOT add additional velocity tendencies after this function zero_velocity_tendency!(Yₜ, Y, p, t) diff --git a/src/solver/model_getters.jl b/src/solver/model_getters.jl index e2402bc76e2..9b84033f324 100644 --- a/src/solver/model_getters.jl +++ b/src/solver/model_getters.jl @@ -156,6 +156,18 @@ function get_viscous_sponge_model(parsed_args, params, ::Type{FT}) where {FT} end end +function get_smagorinsky_lilly_model(parsed_args, params, ::Type{FT}) where {FT} + is_model_active = parsed_args["smagorinsky_lilly"] + Cs = parsed_args["c_smag"] + Pr_t = parsed_args["prandtl_turbulent_neutral"] # Turbulent Prandtl number for neutral stratification + @assert is_model_active in (true, false) + return if is_model_active == true + SmagorinskyLilly{FT}(; Cs, Pr_t) + else + nothing + end +end + function get_rayleigh_sponge_model(parsed_args, params, ::Type{FT}) where {FT} rs_name = parsed_args["rayleigh_sponge"] return if rs_name in ("false", false) diff --git a/src/solver/type_getters.jl b/src/solver/type_getters.jl index 498133a29ed..8513af27345 100644 --- a/src/solver/type_getters.jl +++ b/src/solver/type_getters.jl @@ -85,6 +85,11 @@ function get_atmos(config::AtmosConfig, params) diff_mode = implicit_diffusion ? Implicit() : Explicit(), sgs_adv_mode = implicit_sgs_advection ? Implicit() : Explicit(), viscous_sponge = get_viscous_sponge_model(parsed_args, params, FT), + smagorinsky_lilly = get_smagorinsky_lilly_model( + parsed_args, + params, + FT, + ), rayleigh_sponge = get_rayleigh_sponge_model(parsed_args, params, FT), sfc_temperature = get_sfc_temperature_form(parsed_args), insolation = get_insolation_form(parsed_args), diff --git a/src/solver/types.jl b/src/solver/types.jl index b566d30419c..96932168042 100644 --- a/src/solver/types.jl +++ b/src/solver/types.jl @@ -126,6 +126,12 @@ Base.@kwdef struct ViscousSponge{FT} <: AbstractSponge κ₂::FT end +abstract type AbstractEddyViscosityModel end +Base.@kwdef struct SmagorinskyLilly{FT} <: AbstractEddyViscosityModel + Cs::FT = 0.2 + Pr_t::FT = 1 / 3 +end + Base.@kwdef struct RayleighSponge{FT} <: AbstractSponge zd::FT α_uₕ::FT @@ -436,6 +442,7 @@ Base.@kwdef struct AtmosModel{ DM, SAM, VS, + SL, RS, ST, IN, @@ -469,6 +476,7 @@ Base.@kwdef struct AtmosModel{ diff_mode::DM = nothing sgs_adv_mode::SAM = nothing viscous_sponge::VS = nothing + smagorinsky_lilly::SL = nothing rayleigh_sponge::RS = nothing sfc_temperature::ST = nothing insolation::IN = nothing diff --git a/test/parameterized_tendencies/gravity_wave/gw_plotutils.jl b/test/parameterized_tendencies/gravity_wave/gw_plotutils.jl index b7a9b40c627..8ef787dae98 100644 --- a/test/parameterized_tendencies/gravity_wave/gw_plotutils.jl +++ b/test/parameterized_tendencies/gravity_wave/gw_plotutils.jl @@ -40,14 +40,7 @@ function create_plot!( if Z == nothing generic_axis = fig[p_loc[1], p_loc[2]] = GridLayout() axis = Axis(generic_axis[1, 1]; title, xlabel, ylabel, xscale, yscale) - CairoMakie.lines!( - X, - Y; - title, - linewidth, - label = label[1], - linestyle = :solid, - ) + CairoMakie.lines!(X, Y; linewidth, label = label[1], linestyle = :solid) else generic_axis = fig[p_loc[1], p_loc[2]] = GridLayout() # Generic Axis Layout Axis(generic_axis[1, 1]; title, xlabel, ylabel, yscale, yreversed) # Plot specific attributes diff --git a/test/parameterized_tendencies/les_closures/smagorinsky_lilly.jl b/test/parameterized_tendencies/les_closures/smagorinsky_lilly.jl new file mode 100644 index 00000000000..434267f7607 --- /dev/null +++ b/test/parameterized_tendencies/les_closures/smagorinsky_lilly.jl @@ -0,0 +1,69 @@ + +using Test +import ClimaAtmos as CA +import ClimaAtmos.Parameters as CAP +import ClimaCore as CC +import Thermodynamics as TD + +### Common Objects ### +@testset begin + "Smagorinsky Lilly function" + ### Boilerplate default integrator objects + config = CA.AtmosConfig( + Dict( + "initial_condition" => "DryDensityCurrentProfile", + "moist" => "dry", + "precip_model" => "0M", + "config" => "box", + "x_max" => π, + "y_max" => π, + "z_max" => 1.0, + "z_stretch" => false, + "output_default_diagnostics" => false, + ), + ) + parsed_args = config.parsed_args + simulation = CA.get_simulation(config) + (; integrator) = simulation + Y = integrator.u + Yₜ = similar(Y) + p = integrator.p + params = p.params + cm_params = CAP.microphysics_params(params) + thermo_params = CAP.thermodynamics_params(params) + + FT = eltype(Y) + ᶜYₜ = Y .* FT(0) + c_xyz = CC.Fields.coordinate_field(Y.c) + f_xyz = CC.Fields.coordinate_field(Y.f) + x = c_xyz.x + y = c_xyz.y + z = f_xyz.z + + u = @. sin(x) * cos(y) + v = @. sin(y) * cos(x) + w = @. Geometry.WVector(z ./ maximum(z)) + + u_x = @. cos(x) * cos(y) + v_x = @. -sin(y) * sin(x) + u_y = @. -sin(x) * sin(y) + v_y = @. cos(y) * cos(x) + w_x = zeros(axes(Y.c)) + w_y = zeros(axes(Y.c)) + + vel = @. CC.Geometry.UVVector(u, v) + + Y.c.ρ .= FT(1) + Y.c.uₕ .= Geometry.Covariant12Vector(vel) + Y.f.u₃ .= Geometry.Covariant3Vector(w) + + horizontal_smagorinsky_lilly_tendency( + Yₜ, + Y, + p, + t, + SmagorinskyLilly(FT(0.2)), + ) + + ### Component test begins here +end diff --git a/toml/isdac_box.toml b/toml/les_isdac.toml similarity index 100% rename from toml/isdac_box.toml rename to toml/les_isdac.toml