diff --git a/.vscode/settings.json b/.vscode/settings.json index 9e26dfe..716e1d4 100644 --- a/.vscode/settings.json +++ b/.vscode/settings.json @@ -1 +1,3 @@ -{} \ No newline at end of file +{ + "editor.copyWithSyntaxHighlighting": false +} \ No newline at end of file diff --git a/Manifest.toml b/Manifest.toml index 9a284f9..ded0b3c 100644 --- a/Manifest.toml +++ b/Manifest.toml @@ -1,14 +1,20 @@ # This file is machine-generated - editing it directly is not advised -julia_version = "1.9.3" +julia_version = "1.10.3" manifest_format = "2.0" -project_hash = "e9fbe668ff2d190b05daa309f0bdc9bb8fae5e70" +project_hash = "7e06a587f66ea52a4045cf1ec2a864704c9b29ab" [[deps.ANSIColoredPrinters]] git-tree-sha1 = "574baf8110975760d391c710b6341da1afa48d8c" uuid = "a4c015fc-c6ff-483c-b24f-f7ea428134e9" version = "0.0.1" +[[deps.ARFFFiles]] +deps = ["CategoricalArrays", "Dates", "Parsers", "Tables"] +git-tree-sha1 = "e8c8e0a2be6eb4f56b1672e46004463033daa409" +uuid = "da404889-ca92-49ff-9e8b-0aa6b4d38dc8" +version = "1.4.1" + [[deps.AbstractFFTs]] deps = ["LinearAlgebra"] git-tree-sha1 = "d92ad398961a3ed262d8bf04a1a2b8340f915fef" @@ -21,20 +27,26 @@ weakdeps = ["ChainRulesCore", "Test"] AbstractFFTsTestExt = "Test" [[deps.AbstractTrees]] -git-tree-sha1 = "faa260e4cb5aba097a73fab382dd4b5819d8ec8c" +git-tree-sha1 = "2d9c9a55f9c93e8887ad391fbae72f8ef55e1177" uuid = "1520ce14-60c1-5f80-bbc7-55ef81b5835c" -version = "0.4.4" +version = "0.4.5" [[deps.Adapt]] deps = ["LinearAlgebra", "Requires"] -git-tree-sha1 = "02f731463748db57cc2ebfbd9fbc9ce8280d3433" +git-tree-sha1 = "6a55b747d1812e699320963ffde36f1ebdda4099" uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e" -version = "3.7.1" +version = "4.0.4" weakdeps = ["StaticArrays"] [deps.Adapt.extensions] AdaptStaticArraysExt = "StaticArrays" +[[deps.AliasTables]] +deps = ["Random"] +git-tree-sha1 = "07591db28451b3e45f4c0088a2d5e986ae5aa92d" +uuid = "66dad0bd-aa9a-41b7-9441-69ab47430ed8" +version = "1.1.1" + [[deps.ArgCheck]] git-tree-sha1 = "a3a402a35a2f7e0b87828ccabbd5ebfbebe356b4" uuid = "dce04be8-c92d-5529-be00-80e4d2c0e197" @@ -46,31 +58,9 @@ version = "1.1.1" [[deps.ArnoldiMethod]] deps = ["LinearAlgebra", "Random", "StaticArrays"] -git-tree-sha1 = "62e51b39331de8911e4a7ff6f5aaf38a5f4cc0ae" +git-tree-sha1 = "d57bd3762d308bded22c3b82d033bff85f6195c6" uuid = "ec485272-7323-5ecc-a04f-4719b315124d" -version = "0.2.0" - -[[deps.ArrayInterface]] -deps = ["Adapt", "LinearAlgebra", "Requires", "SparseArrays", "SuiteSparse"] -git-tree-sha1 = "247efbccf92448be332d154d6ca56b9fcdd93c31" -uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9" -version = "7.6.1" - - [deps.ArrayInterface.extensions] - ArrayInterfaceBandedMatricesExt = "BandedMatrices" - ArrayInterfaceBlockBandedMatricesExt = "BlockBandedMatrices" - ArrayInterfaceCUDAExt = "CUDA" - ArrayInterfaceGPUArraysCoreExt = "GPUArraysCore" - ArrayInterfaceStaticArraysCoreExt = "StaticArraysCore" - ArrayInterfaceTrackerExt = "Tracker" - - [deps.ArrayInterface.weakdeps] - BandedMatrices = "aae01518-5342-5314-be14-df237901396f" - BlockBandedMatrices = "ffab5731-97b5-5995-9138-79e8c1846df0" - CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba" - GPUArraysCore = "46192b85-c4d5-4398-a991-12ede77f4527" - StaticArraysCore = "1e83bf80-4336-4d27-bf5d-d5a4f845583c" - Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" +version = "0.4.0" [[deps.Artifacts]] uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33" @@ -81,11 +71,10 @@ git-tree-sha1 = "c06a868224ecba914baa6942988e2f2aade419be" uuid = "a9b6321e-bd34-4604-b9c9-b65b8de01458" version = "0.1.0" -[[deps.AtomsBase]] -deps = ["LinearAlgebra", "PeriodicTable", "Printf", "Requires", "StaticArrays", "Unitful", "UnitfulAtomic"] -git-tree-sha1 = "995c2b6b17840cd87b722ce9c6cdd72f47bab545" -uuid = "a963bdd2-2df7-4f54-a1ee-49d51e6be12a" -version = "0.3.5" +[[deps.AutoHashEquals]] +git-tree-sha1 = "45bb6705d93be619b81451bb2006b7ee5d4e4453" +uuid = "15f4f7f2-30c1-5605-9d31-71845cf9641f" +version = "0.2.0" [[deps.AxisAlgorithms]] deps = ["LinearAlgebra", "Random", "SparseArrays", "WoodburyMatrices"] @@ -101,15 +90,15 @@ version = "0.4.7" [[deps.BFloat16s]] deps = ["LinearAlgebra", "Printf", "Random", "Test"] -git-tree-sha1 = "dbf84058d0a8cbbadee18d25cf606934b22d7c66" +git-tree-sha1 = "2c7cc21e8678eff479978a0a2ef5ce2f51b63dff" uuid = "ab4f0b2a-ad5b-11e8-123f-65d77653426b" -version = "0.4.2" +version = "0.5.0" [[deps.BangBang]] deps = ["Compat", "ConstructionBase", "InitialValues", "LinearAlgebra", "Requires", "Setfield", "Tables"] -git-tree-sha1 = "e28912ce94077686443433c2800104b061a827ed" +git-tree-sha1 = "7aa7ad1682f3d5754e3491bb59b8103cae28e3a3" uuid = "198e06fe-97b7-11e9-32a5-e1d131e6ad66" -version = "0.3.39" +version = "0.3.40" [deps.BangBang.extensions] BangBangChainRulesCoreExt = "ChainRulesCore" @@ -138,6 +127,16 @@ git-tree-sha1 = "2dc09997850d68179b69dafb58ae806167a32b1b" uuid = "d1d4a3ce-64b1-5f1a-9ba4-7e7e69966f35" version = "0.1.8" +[[deps.BlackBoxOptim]] +deps = ["CPUTime", "Compat", "Distributed", "Distributions", "JSON", "LinearAlgebra", "Printf", "Random", "Requires", "SpatialIndexing", "StatsBase"] +git-tree-sha1 = "9c203a2515b5eeab8f2987614d2b1db83ef03542" +uuid = "a134a8b2-14d6-55f6-9291-3336d3ab0209" +version = "0.6.3" +weakdeps = ["HTTP", "Sockets"] + + [deps.BlackBoxOptim.extensions] + BlackBoxOptimRealtimePlotServerExt = ["HTTP", "Sockets"] + [[deps.Blosc]] deps = ["Blosc_jll"] git-tree-sha1 = "310b77648d38c223d947ff3f50f511d08690b8d5" @@ -150,33 +149,27 @@ git-tree-sha1 = "19b98ee7e3db3b4eff74c5c9c72bf32144e24f10" uuid = "0b7ba130-8d10-5ba8-a3d6-c5182647fed9" version = "1.21.5+0" -[[deps.BufferedStreams]] -git-tree-sha1 = "4ae47f9a4b1dc19897d3743ff13685925c5202ec" -uuid = "e1450e63-4bb3-523b-b2a4-4ffa8c0fd77d" -version = "1.2.1" - [[deps.Bzip2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "19a35467a82e236ff51bc17a3a44b69ef35185a2" +git-tree-sha1 = "9e2a6b69137e6969bab0152632dcb3bc108c8bdd" uuid = "6e34b625-4abd-537c-b88f-471c36dfa7a0" -version = "1.0.8+0" +version = "1.0.8+1" [[deps.CEnum]] -git-tree-sha1 = "eb4cb44a499229b3b8426dcfb5dd85333951ff90" +git-tree-sha1 = "389ad5c84de1ae7cf0e28e381131c98ea87d54fc" uuid = "fa961155-64e5-5f13-b03f-caf6b980ea82" -version = "0.4.2" +version = "0.5.0" -[[deps.CSV]] -deps = ["CodecZlib", "Dates", "FilePathsBase", "InlineStrings", "Mmap", "Parsers", "PooledArrays", "PrecompileTools", "SentinelArrays", "Tables", "Unicode", "WeakRefStrings", "WorkerUtilities"] -git-tree-sha1 = "44dbf560808d49041989b8a96cae4cffbeb7966a" -uuid = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b" -version = "0.10.11" +[[deps.CPUTime]] +git-tree-sha1 = "2dcc50ea6a0a1ef6440d6eecd0fe3813e5671f45" +uuid = "a9c8d775-2e2e-55fc-8582-045d282d599e" +version = "1.0.0" [[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", "Statistics", "UnsafeAtomicsLLVM"] -git-tree-sha1 = "76582ae19006b1186e87dadd781747f76cead72c" +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 = "4e33522a036b39fc6f5cb7447ae3b28eb8fbe99b" uuid = "052768ef-5323-5732-b1bb-66c8b64840ba" -version = "5.1.1" +version = "5.3.3" weakdeps = ["ChainRulesCore", "SpecialFunctions"] [deps.CUDA.extensions] @@ -185,33 +178,39 @@ weakdeps = ["ChainRulesCore", "SpecialFunctions"] [[deps.CUDA_Driver_jll]] deps = ["Artifacts", "JLLWrappers", "LazyArtifacts", "Libdl", "Pkg"] -git-tree-sha1 = "1e42ef1bdb45487ff28de16182c0df4920181dc3" +git-tree-sha1 = "dc172b558adbf17952001e15cf0d6364e6d78c2f" uuid = "4ee394cb-3365-5eb0-8335-949819d2adfc" -version = "0.7.0+0" +version = "0.8.1+0" [[deps.CUDA_Runtime_Discovery]] deps = ["Libdl"] -git-tree-sha1 = "bcc4a23cbbd99c8535a5318455dcf0f2546ec536" +git-tree-sha1 = "38f830504358e9972d2a0c3e5d51cb865e0733df" uuid = "1af6417a-86b4-443c-805f-a4643ffb695f" -version = "0.2.2" +version = "0.2.4" [[deps.CUDA_Runtime_jll]] deps = ["Artifacts", "CUDA_Driver_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "TOML"] -git-tree-sha1 = "9704e50c9158cf8896c2776b8dbc5edd136caf80" +git-tree-sha1 = "4ca7d6d92075906c2ce871ea8bba971fff20d00c" uuid = "76a88914-d11a-5bdc-97e0-2f5a05c973a2" -version = "0.10.1+0" +version = "0.12.1+0" [[deps.CUDNN_jll]] deps = ["Artifacts", "CUDA_Runtime_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "TOML"] -git-tree-sha1 = "75923dce4275ead3799b238e10178a68c07dbd3b" +git-tree-sha1 = "cbf7d75f8c58b147bdf6acea2e5bc96cececa6d4" uuid = "62b44479-cb7b-5706-934f-f13b2eb2e645" -version = "8.9.4+0" +version = "9.0.0+1" [[deps.Cairo_jll]] -deps = ["Artifacts", "Bzip2_jll", "CompilerSupportLibraries_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "JLLWrappers", "LZO_jll", "Libdl", "Pixman_jll", "Pkg", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Zlib_jll", "libpng_jll"] -git-tree-sha1 = "4b859a208b2397a7a623a03449e4636bdb17bcf2" +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"] +git-tree-sha1 = "a4c43f59baa34011e303e76f5c8c91bf58415aaf" uuid = "83423d85-b0ee-5818-9007-b63ccbeb887a" -version = "1.16.1+1" +version = "1.18.0+1" + +[[deps.Calculus]] +deps = ["LinearAlgebra"] +git-tree-sha1 = "f641eb0a4f00c343bbc32346e1217b86f3ce9dad" +uuid = "49dc2e85-a5d0-5ad3-a950-438e2897f1b9" +version = "0.5.1" [[deps.CatIndices]] deps = ["CustomUnitRanges", "OffsetArrays"] @@ -219,45 +218,63 @@ git-tree-sha1 = "a0f80a09780eed9b1d106a1bf62041c2efc995bc" uuid = "aafaddc9-749c-510e-ac4f-586e18779b91" version = "0.2.2" +[[deps.CategoricalArrays]] +deps = ["DataAPI", "Future", "Missings", "Printf", "Requires", "Statistics", "Unicode"] +git-tree-sha1 = "1568b28f91293458345dabba6a5ea3f183250a61" +uuid = "324d7699-5711-5eae-9e2f-1d82baa6b597" +version = "0.10.8" + + [deps.CategoricalArrays.extensions] + CategoricalArraysJSONExt = "JSON" + CategoricalArraysRecipesBaseExt = "RecipesBase" + CategoricalArraysSentinelArraysExt = "SentinelArrays" + CategoricalArraysStructTypesExt = "StructTypes" + + [deps.CategoricalArrays.weakdeps] + JSON = "682c06a0-de6a-54ab-a142-c8b1cf79cde6" + RecipesBase = "3cdcf5f2-1ef4-517c-9805-6587b60abb01" + SentinelArrays = "91c51154-3ec4-41a3-a24f-3f23e20d615c" + StructTypes = "856f2bd8-1eba-4b0a-8007-ebc267875bd4" + +[[deps.CategoricalDistributions]] +deps = ["CategoricalArrays", "Distributions", "Missings", "OrderedCollections", "Random", "ScientificTypes"] +git-tree-sha1 = "926862f549a82d6c3a7145bc7f1adff2a91a39f0" +uuid = "af321ab8-2d2e-40a6-b165-3d674595d28e" +version = "0.1.15" + + [deps.CategoricalDistributions.extensions] + UnivariateFiniteDisplayExt = "UnicodePlots" + + [deps.CategoricalDistributions.weakdeps] + UnicodePlots = "b8865327-cd53-5732-bb35-84acbb429228" + [[deps.ChainRules]] deps = ["Adapt", "ChainRulesCore", "Compat", "Distributed", "GPUArraysCore", "IrrationalConstants", "LinearAlgebra", "Random", "RealDot", "SparseArrays", "SparseInverseSubset", "Statistics", "StructArrays", "SuiteSparse"] -git-tree-sha1 = "006cc7170be3e0fa02ccac6d4164a1eee1fc8c27" +git-tree-sha1 = "e7d1016142a71c980309114ee30a3e4f870902f4" uuid = "082447d4-558c-5d27-93f4-14fc19e9eca2" -version = "1.58.0" +version = "1.65.0" [[deps.ChainRulesCore]] deps = ["Compat", "LinearAlgebra"] -git-tree-sha1 = "e0af648f0692ec1691b5d094b8724ba1346281cf" +git-tree-sha1 = "575cd02e080939a33b6df6c5853d14924c08e35b" uuid = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" -version = "1.18.0" +version = "1.23.0" weakdeps = ["SparseArrays"] [deps.ChainRulesCore.extensions] ChainRulesCoreSparseArraysExt = "SparseArrays" -[[deps.Chemfiles]] -deps = ["AtomsBase", "Chemfiles_jll", "DocStringExtensions", "PeriodicTable", "Unitful", "UnitfulAtomic"] -git-tree-sha1 = "82fe5e341c793cb51149d993307da9543824b206" -uuid = "46823bd8-5fb3-5f92-9aa0-96921f3dd015" -version = "0.10.41" - -[[deps.Chemfiles_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "f3743181e30d87c23d9c8ebd493b77f43d8f1890" -uuid = "78a364fa-1a3c-552a-b4bb-8fa0f9c1fcca" -version = "0.10.4+0" - [[deps.Clustering]] deps = ["Distances", "LinearAlgebra", "NearestNeighbors", "Printf", "Random", "SparseArrays", "Statistics", "StatsBase"] -git-tree-sha1 = "05f9816a77231b07e634ab8715ba50e5249d6f76" +git-tree-sha1 = "9ebb045901e9bbf58767a9f34ff89831ed711aae" uuid = "aaaa29a8-35af-508c-8bc3-b662a17a0fe5" -version = "0.15.5" +version = "0.15.7" [[deps.CodecZlib]] deps = ["TranscodingStreams", "Zlib_jll"] -git-tree-sha1 = "cd67fc487743b2f0fd4380d4cbd3a24660d0eec8" +git-tree-sha1 = "59939d8a997469ee05c4b4944560a820f9ba0d73" uuid = "944b1d66-785c-5afd-91f1-9de20f533193" -version = "0.7.3" +version = "0.7.4" [[deps.ColorSchemes]] deps = ["ColorTypes", "ColorVectorSpace", "Colors", "FixedPointNumbers", "PrecompileTools", "Random"] @@ -267,9 +284,9 @@ version = "3.24.0" [[deps.ColorTypes]] deps = ["FixedPointNumbers", "Random"] -git-tree-sha1 = "eb7f0f8307f71fac7c606984ea5fb2817275d6e4" +git-tree-sha1 = "b10d0b65641d57b8b4d5e234446582de5047050d" uuid = "3da002f7-5984-5a60-b8a6-cbb66c0b333f" -version = "0.11.4" +version = "0.11.5" [[deps.ColorVectorSpace]] deps = ["ColorTypes", "FixedPointNumbers", "LinearAlgebra", "SpecialFunctions", "Statistics", "TensorCore"] @@ -283,6 +300,11 @@ git-tree-sha1 = "fc08e5930ee9a4e03f84bfb5211cb54e7769758a" uuid = "5ae59095-9a9b-59fe-a467-6f913c188581" version = "0.12.10" +[[deps.Combinatorics]] +git-tree-sha1 = "08c8b6831dc00bfea825826be0bc8336fc369860" +uuid = "861a8166-3701-5b0c-9a16-15d98fcdc6aa" +version = "1.0.2" + [[deps.CommonSubexpressions]] deps = ["MacroTools", "Test"] git-tree-sha1 = "7b8a93dba8af7e3b42fecabf646260105ac373f7" @@ -290,10 +312,10 @@ uuid = "bbf7d656-a473-5ed7-a52c-81e309532950" version = "0.3.0" [[deps.Compat]] -deps = ["UUIDs"] -git-tree-sha1 = "886826d76ea9e72b35fcd000e535588f7b60f21d" +deps = ["TOML", "UUIDs"] +git-tree-sha1 = "c955881e3c981181362ae4088b35995446298b80" uuid = "34da2185-b29b-5c13-b0c7-acf172513d20" -version = "4.10.1" +version = "4.14.0" weakdeps = ["Dates", "LinearAlgebra"] [deps.Compat.extensions] @@ -302,7 +324,7 @@ weakdeps = ["Dates", "LinearAlgebra"] [[deps.CompilerSupportLibraries_jll]] deps = ["Artifacts", "Libdl"] uuid = "e66e0078-7015-5450-92f7-15fbd957f2ae" -version = "1.0.5+0" +version = "1.1.1+0" [[deps.CompositionsBase]] git-tree-sha1 = "802bb88cd69dfd1509f6670416bd4434015693ad" @@ -322,9 +344,9 @@ version = "0.3.2" [[deps.ConcurrentUtilities]] deps = ["Serialization", "Sockets"] -git-tree-sha1 = "8cfa272e8bdedfa88b6aefbbca7c19f1befac519" +git-tree-sha1 = "6cbbd4d241d7e6579ab354737f4dd95ca43946e1" uuid = "f0e56b4a-5159-44fe-b623-3e5288b988bb" -version = "2.3.0" +version = "2.4.1" [[deps.Conda]] deps = ["Downloads", "JSON", "VersionParsing"] @@ -334,9 +356,9 @@ version = "1.10.0" [[deps.ConstructionBase]] deps = ["LinearAlgebra"] -git-tree-sha1 = "c53fc348ca4d40d7b371e71fd52251839080cbc9" +git-tree-sha1 = "260fd2400ed2dab602a7c15cf10c1933c59930a2" uuid = "187b0558-2788-49d3-abe0-74a17ed4e7c9" -version = "1.5.4" +version = "1.5.5" weakdeps = ["IntervalSets", "StaticArrays"] [deps.ConstructionBase.extensions] @@ -352,15 +374,13 @@ version = "0.1.3" [[deps.ContinuousWavelets]] deps = ["AbstractFFTs", "Documenter", "FFTW", "Interpolations", "LinearAlgebra", "SpecialFunctions", "Wavelets"] git-tree-sha1 = "7ffb11764c40de13c8ad41813a61d9ea6e6012bb" -repo-rev = "master" -repo-url = "https://github.com/dsweber2/ContinuousWavelets.jl.git" uuid = "96eb917e-2868-4417-9cb6-27e7ff17528f" version = "1.1.4" [[deps.Contour]] -git-tree-sha1 = "d05d9e7b7aedff4e5b51a029dced05cfb6125781" +git-tree-sha1 = "439e35b0b36e2e5881738abc8857bd92ad6ff9a8" uuid = "d38c429a-6771-53c6-b99e-75d170b6e991" -version = "0.6.2" +version = "0.6.3" [[deps.CoordinateTransformations]] deps = ["LinearAlgebra", "StaticArrays"] @@ -385,15 +405,9 @@ uuid = "717857b8-e6f2-59f4-9121-6e50c889abd2" version = "0.7.9" [[deps.DataAPI]] -git-tree-sha1 = "8da84edb865b0b5b0100c0666a9bc9a0b71c553c" +git-tree-sha1 = "abe83f3a2f1b857aac70ef8b269080af17764bbe" uuid = "9a962f9c-6df0-11e9-0e5d-c546b8b5ee8a" -version = "1.15.0" - -[[deps.DataDeps]] -deps = ["HTTP", "Libdl", "Reexport", "SHA", "p7zip_jll"] -git-tree-sha1 = "6e8d74545d34528c30ccd3fa0f3c00f8ed49584c" -uuid = "124859b0-ceae-595e-8997-d05f6a7a8dfe" -version = "0.7.11" +version = "1.16.0" [[deps.DataFrames]] deps = ["Compat", "DataAPI", "DataStructures", "Future", "InlineStrings", "InvertedIndices", "IteratorInterfaceExtensions", "LinearAlgebra", "Markdown", "Missings", "PooledArrays", "PrecompileTools", "PrettyTables", "Printf", "REPL", "Random", "Reexport", "SentinelArrays", "SortingAlgorithms", "Statistics", "TableTraits", "Tables", "Unicode"] @@ -403,9 +417,9 @@ version = "1.6.1" [[deps.DataStructures]] deps = ["Compat", "InteractiveUtils", "OrderedCollections"] -git-tree-sha1 = "3dbd312d370723b6bb43ba9d02fc36abade4518d" +git-tree-sha1 = "1d0a14036acb104d9e89698bd408f63ab58cdc82" uuid = "864edb3b-99cc-5e75-8d2d-829cb0a9cfe8" -version = "0.18.15" +version = "0.18.20" [[deps.DataValueInterfaces]] git-tree-sha1 = "bfc1187b79289637fa0ef6d4436ebdfe6905cbd6" @@ -460,6 +474,22 @@ git-tree-sha1 = "8a2950a2a7fcc87d9d9f07433a96bfa70394a3e6" uuid = "aaf54ef3-cdf8-58ed-94cc-d582ad619b94" version = "0.6.7" +[[deps.Distributions]] +deps = ["AliasTables", "FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsAPI", "StatsBase", "StatsFuns"] +git-tree-sha1 = "22c595ca4146c07b16bcf9c8bea86f731f7109d2" +uuid = "31c24e10-a181-5473-b8eb-7969acd0382f" +version = "0.25.108" + + [deps.Distributions.extensions] + DistributionsChainRulesCoreExt = "ChainRulesCore" + DistributionsDensityInterfaceExt = "DensityInterface" + DistributionsTestExt = "Test" + + [deps.Distributions.weakdeps] + ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" + DensityInterface = "b429d917-457f-4dbc-8f4c-0cc954292b1d" + Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40" + [[deps.DocStringExtensions]] deps = ["LibGit2"] git-tree-sha1 = "2fb1e02f2b635d0845df5d7c167fec4dd739b00d" @@ -467,16 +497,28 @@ uuid = "ffbed154-4ef7-542d-bbb7-c09d3a79fcae" version = "0.9.3" [[deps.Documenter]] -deps = ["ANSIColoredPrinters", "AbstractTrees", "Base64", "Dates", "DocStringExtensions", "Downloads", "Git", "IOCapture", "InteractiveUtils", "JSON", "LibGit2", "Logging", "Markdown", "MarkdownAST", "Pkg", "PrecompileTools", "REPL", "RegistryInstances", "SHA", "Test", "Unicode"] -git-tree-sha1 = "43aa88b72dffff46b1b19f66483ea3e2f907c4fa" +deps = ["ANSIColoredPrinters", "AbstractTrees", "Base64", "CodecZlib", "Dates", "DocStringExtensions", "Downloads", "Git", "IOCapture", "InteractiveUtils", "JSON", "LibGit2", "Logging", "Markdown", "MarkdownAST", "Pkg", "PrecompileTools", "REPL", "RegistryInstances", "SHA", "TOML", "Test", "Unicode"] +git-tree-sha1 = "5461b2a67beb9089980e2f8f25145186b6d34f91" uuid = "e30172f5-a6a5-5a46-863b-614d45cd2de4" -version = "1.2.0" +version = "1.4.1" [[deps.Downloads]] deps = ["ArgTools", "FileWatching", "LibCURL", "NetworkOptions"] uuid = "f43a241f-c20a-4ad4-852c-f6b1247861c6" version = "1.6.0" +[[deps.DualNumbers]] +deps = ["Calculus", "NaNMath", "SpecialFunctions"] +git-tree-sha1 = "5837a837389fccf076445fce071c8ddaea35a566" +uuid = "fa6b7ba4-c1ee-5f82-b5fc-ecf0adba8f74" +version = "0.6.8" + +[[deps.EarlyStopping]] +deps = ["Dates", "Statistics"] +git-tree-sha1 = "98fdf08b707aaf69f524a6cd0a67858cefe0cfb6" +uuid = "792122b4-ca99-40de-a6bc-6742525f08b6" +version = "0.3.0" + [[deps.EpollShim_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] git-tree-sha1 = "8e9441ee83492030ace98f9789a654a6d0b1f643" @@ -485,15 +527,15 @@ version = "0.0.20230411+0" [[deps.ExceptionUnwrapping]] deps = ["Test"] -git-tree-sha1 = "e90caa41f5a86296e014e148ee061bd6c3edec96" +git-tree-sha1 = "dcb08a0d93ec0b1cdc4af184b26b591e9695423a" uuid = "460bff9d-24e4-43bc-9d9f-a8973cb893f4" -version = "0.1.9" +version = "0.1.10" [[deps.Expat_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "4558ab818dcceaab612d1bb8c19cee87eda2b83c" +git-tree-sha1 = "1c6317308b9dc757616f0b5cb379db10494443a7" uuid = "2e619515-83b5-522b-bb60-26c02a35a201" -version = "2.5.0+0" +version = "2.6.2+0" [[deps.ExprTools]] git-tree-sha1 = "27415f162e6028e81c72b82ef756bf321213b6ec" @@ -507,10 +549,10 @@ uuid = "c87230d0-a227-11e9-1b43-d7ebe4e7570a" version = "0.4.1" [[deps.FFMPEG_jll]] -deps = ["Artifacts", "Bzip2_jll", "FreeType2_jll", "FriBidi_jll", "JLLWrappers", "LAME_jll", "Libdl", "Ogg_jll", "OpenSSL_jll", "Opus_jll", "PCRE2_jll", "Pkg", "Zlib_jll", "libaom_jll", "libass_jll", "libfdk_aac_jll", "libvorbis_jll", "x264_jll", "x265_jll"] -git-tree-sha1 = "74faea50c1d007c85837327f6775bea60b5492dd" +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"] +git-tree-sha1 = "466d45dc38e15794ec7d5d63ec03d776a9aff36e" uuid = "b22a6f82-2f65-5046-a5b2-351ab43fb4e5" -version = "4.4.2+2" +version = "4.4.4+1" [[deps.FFTViews]] deps = ["CustomUnitRanges", "FFTW"] @@ -520,9 +562,9 @@ version = "0.3.2" [[deps.FFTW]] deps = ["AbstractFFTs", "FFTW_jll", "LinearAlgebra", "MKL_jll", "Preferences", "Reexport"] -git-tree-sha1 = "b4fbdd20c889804969571cc589900803edda16b7" +git-tree-sha1 = "4820348781ae578893311153d69049a93d05f39d" uuid = "7a1cc6ca-52ef-59f5-83cd-3a7055c09341" -version = "1.7.1" +version = "1.8.0" [[deps.FFTW_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -544,9 +586,9 @@ version = "0.1.1" [[deps.FileIO]] deps = ["Pkg", "Requires", "UUIDs"] -git-tree-sha1 = "299dc33549f68299137e51e6d49a13b5b1da9673" +git-tree-sha1 = "82d8afa92ecf4b52d78d869f038ebfb881267322" uuid = "5789e2e9-d7fb-5bc7-8068-2c6fae9b9549" -version = "1.16.1" +version = "1.16.3" [[deps.FilePathsBase]] deps = ["Compat", "Dates", "Mmap", "Printf", "Test", "UUIDs"] @@ -558,21 +600,17 @@ version = "0.9.21" uuid = "7b1f6079-737a-58dc-b8bc-7a2ca5c1b5ee" [[deps.FillArrays]] -deps = ["LinearAlgebra", "Random"] -git-tree-sha1 = "28e4e9c4b7b162398ec8004bdabe9a90c78c122d" +deps = ["LinearAlgebra"] +git-tree-sha1 = "57f08d5665e76397e96b168f9acc12ab17c84a68" uuid = "1a297f60-69ca-5386-bcde-b61e274b549b" -version = "1.8.0" +version = "1.10.2" +weakdeps = ["PDMats", "SparseArrays", "Statistics"] [deps.FillArrays.extensions] FillArraysPDMatsExt = "PDMats" FillArraysSparseArraysExt = "SparseArrays" FillArraysStatisticsExt = "Statistics" - [deps.FillArrays.weakdeps] - PDMats = "90014a1f-27ba-587c-ab20-58faa44d9150" - SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" - Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2" - [[deps.FixedPointNumbers]] deps = ["Statistics"] git-tree-sha1 = "335bfdceacc84c5cdf16aadc768aa5ddfc5383cc" @@ -580,10 +618,10 @@ uuid = "53c48c17-4a7d-5ca2-90c5-79b7896eea93" version = "0.8.4" [[deps.Flux]] -deps = ["Adapt", "ChainRulesCore", "Functors", "LinearAlgebra", "MLUtils", "MacroTools", "NNlib", "OneHotArrays", "Optimisers", "Preferences", "ProgressLogging", "Random", "Reexport", "SparseArrays", "SpecialFunctions", "Statistics", "Zygote"] -git-tree-sha1 = "b97c3fc4f3628b8835d83789b09382961a254da4" +deps = ["Adapt", "ChainRulesCore", "Compat", "Functors", "LinearAlgebra", "MLUtils", "MacroTools", "NNlib", "OneHotArrays", "Optimisers", "Preferences", "ProgressLogging", "Random", "Reexport", "SparseArrays", "SpecialFunctions", "Statistics", "Zygote"] +git-tree-sha1 = "a5475163b611812d073171583982c42ea48d22b0" uuid = "587475ba-b771-5e3f-ad9e-33799f191a9c" -version = "0.14.6" +version = "0.14.15" [deps.Flux.extensions] FluxAMDGPUExt = "AMDGPU" @@ -598,16 +636,15 @@ version = "0.14.6" cuDNN = "02a925ec-e4fe-4b08-9a7e-0d78e3d38ccd" [[deps.Fontconfig_jll]] -deps = ["Artifacts", "Bzip2_jll", "Expat_jll", "FreeType2_jll", "JLLWrappers", "Libdl", "Libuuid_jll", "Pkg", "Zlib_jll"] -git-tree-sha1 = "21efd19106a55620a188615da6d3d06cd7f6ee03" +deps = ["Artifacts", "Bzip2_jll", "Expat_jll", "FreeType2_jll", "JLLWrappers", "Libdl", "Libuuid_jll", "Zlib_jll"] +git-tree-sha1 = "db16beca600632c95fc8aca29890d83788dd8b23" uuid = "a3f928ae-7b40-5064-980b-68af3947d34b" -version = "2.13.93+0" +version = "2.13.96+0" -[[deps.Formatting]] -deps = ["Printf"] -git-tree-sha1 = "8339d61043228fdd3eb658d86c926cb282ae72a8" -uuid = "59287772-0a20-5a39-b81b-1366585eb4c0" -version = "0.4.2" +[[deps.Format]] +git-tree-sha1 = "9c68794ef81b08086aeb32eeaf33531668d5f5fc" +uuid = "1fa38f19-a742-5d3f-a2b9-30dd87b9d5f8" +version = "1.3.7" [[deps.ForwardDiff]] deps = ["CommonSubexpressions", "DiffResults", "DiffRules", "LinearAlgebra", "LogExpFunctions", "NaNMath", "Preferences", "Printf", "Random", "SpecialFunctions"] @@ -620,12 +657,10 @@ weakdeps = ["StaticArrays"] ForwardDiffStaticArraysExt = "StaticArrays" [[deps.FourierFilterFlux]] -deps = ["AbstractFFTs", "Adapt", "CUDA", "ContinuousWavelets", "FFTW", "FillArrays", "Flux", "LinearAlgebra", "NNlib", "RecipesBase", "Reexport", "Wavelets", "Zygote", "cuDNN"] -git-tree-sha1 = "bb085971344da31fd3edcb329b7202b0c8076c0e" -repo-rev = "master" -repo-url = "https://github.com/dsweber2/FourierFilterFlux.jl" +deps = ["AbstractFFTs", "Adapt", "CUDA", "ContinuousWavelets", "FFTW", "FillArrays", "Flux", "LinearAlgebra", "NNlib", "RecipesBase", "Reexport", "Wavelets", "Zygote"] +git-tree-sha1 = "17e1ba8e1495ef204d9aa59ae122c26496e849cd" uuid = "3d7dfd45-6c90-4c9b-b697-194a05757159" -version = "0.3.4" +version = "0.2.1" [[deps.FreeType2_jll]] deps = ["Artifacts", "Bzip2_jll", "JLLWrappers", "Libdl", "Zlib_jll"] @@ -634,62 +669,62 @@ uuid = "d7e528f0-a631-5988-bf34-fe36492bcfd7" version = "2.13.1+0" [[deps.FriBidi_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "aa31987c2ba8704e23c6c8ba8a4f769d5d7e4f91" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "1ed150b39aebcc805c26b93a8d0122c940f64ce2" uuid = "559328eb-81f9-559d-9380-de523a88c83c" -version = "1.0.10+0" +version = "1.0.14+0" [[deps.Functors]] deps = ["LinearAlgebra"] -git-tree-sha1 = "9a68d75d466ccc1218d0552a8e1631151c569545" +git-tree-sha1 = "d3e63d9fa13f8eaa2f06f64949e2afc593ff52c2" uuid = "d9f16b24-f501-4c13-a1f2-28368ffc5196" -version = "0.4.5" +version = "0.4.10" [[deps.Future]] deps = ["Random"] uuid = "9fa8497b-333b-5362-9e8d-4d0656e87820" [[deps.GLFW_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Libglvnd_jll", "Pkg", "Xorg_libXcursor_jll", "Xorg_libXi_jll", "Xorg_libXinerama_jll", "Xorg_libXrandr_jll"] -git-tree-sha1 = "d972031d28c8c8d9d7b41a536ad7bb0c2579caca" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Libglvnd_jll", "Xorg_libXcursor_jll", "Xorg_libXi_jll", "Xorg_libXinerama_jll", "Xorg_libXrandr_jll"] +git-tree-sha1 = "ff38ba61beff76b8f4acad8ab0c97ef73bb670cb" uuid = "0656b61e-2033-5cc2-a64a-77c0f6c09b89" -version = "3.3.8+0" +version = "3.3.9+0" + +[[deps.GLMNet]] +deps = ["DataFrames", "Distributed", "Distributions", "Printf", "Random", "SparseArrays", "StatsBase", "glmnet_jll"] +git-tree-sha1 = "7ea4e2bbb84183fe52a488d05e16c152b2387b95" +uuid = "8d5ece8b-de18-5317-b113-243142960cc6" +version = "0.7.2" [[deps.GPUArrays]] deps = ["Adapt", "GPUArraysCore", "LLVM", "LinearAlgebra", "Printf", "Random", "Reexport", "Serialization", "Statistics"] -git-tree-sha1 = "85d7fb51afb3def5dcb85ad31c3707795c8bccc1" +git-tree-sha1 = "68e8ff56a4a355a85d2784b94614491f8c900cde" uuid = "0c68f7d7-f131-5f86-a1c3-88cf8149b2d7" -version = "9.1.0" +version = "10.1.0" [[deps.GPUArraysCore]] deps = ["Adapt"] -git-tree-sha1 = "2d6ca471a6c7b536127afccfa7564b5b39227fe0" +git-tree-sha1 = "ec632f177c0d990e64d955ccc1b8c04c485a0950" uuid = "46192b85-c4d5-4398-a991-12ede77f4527" -version = "0.1.5" +version = "0.1.6" [[deps.GPUCompiler]] deps = ["ExprTools", "InteractiveUtils", "LLVM", "Libdl", "Logging", "Scratch", "TimerOutputs", "UUIDs"] -git-tree-sha1 = "a846f297ce9d09ccba02ead0cae70690e072a119" +git-tree-sha1 = "1600477fba37c9fc067b9be21f5e8101f24a8865" uuid = "61eb1bfa-7361-4325-ad38-22787b887f55" -version = "0.25.0" +version = "0.26.4" [[deps.GR]] -deps = ["Artifacts", "Base64", "DelimitedFiles", "Downloads", "GR_jll", "HTTP", "JSON", "Libdl", "LinearAlgebra", "Pkg", "Preferences", "Printf", "Random", "Serialization", "Sockets", "TOML", "Tar", "Test", "UUIDs", "p7zip_jll"] -git-tree-sha1 = "8e2d86e06ceb4580110d9e716be26658effc5bfd" +deps = ["Artifacts", "Base64", "DelimitedFiles", "Downloads", "GR_jll", "HTTP", "JSON", "Libdl", "LinearAlgebra", "Preferences", "Printf", "Random", "Serialization", "Sockets", "TOML", "Tar", "Test", "p7zip_jll"] +git-tree-sha1 = "ddda044ca260ee324c5fc07edb6d7cf3f0b9c350" uuid = "28b8d3ca-fb5f-59d9-8090-bfdbd6d07a71" -version = "0.72.8" +version = "0.73.5" [[deps.GR_jll]] -deps = ["Artifacts", "Bzip2_jll", "Cairo_jll", "FFMPEG_jll", "Fontconfig_jll", "GLFW_jll", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Libtiff_jll", "Pixman_jll", "Qt5Base_jll", "Zlib_jll", "libpng_jll"] -git-tree-sha1 = "da121cbdc95b065da07fbb93638367737969693f" +deps = ["Artifacts", "Bzip2_jll", "Cairo_jll", "FFMPEG_jll", "Fontconfig_jll", "FreeType2_jll", "GLFW_jll", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Libtiff_jll", "Pixman_jll", "Qt6Base_jll", "Zlib_jll", "libpng_jll"] +git-tree-sha1 = "278e5e0f820178e8a26df3184fcb2280717c79b1" uuid = "d2c73de3-f751-5644-a686-071e5b155ba9" -version = "0.72.8+0" - -[[deps.GZip]] -deps = ["Libdl", "Zlib_jll"] -git-tree-sha1 = "6388a2d8e409ce23de7d03a7c73d83c5753b3eb2" -uuid = "92fee26a-97fe-5a0c-ad85-20a5f3185b63" -version = "0.6.1" +version = "0.73.5+0" [[deps.Gettext_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "Libdl", "Libiconv_jll", "Pkg", "XML2_jll"] @@ -697,28 +732,29 @@ git-tree-sha1 = "9b02998aba7bf074d14de89f9d37ca24a1a0b046" uuid = "78b55507-aeef-58d4-861c-77aaff3498b1" version = "0.21.0+0" +[[deps.Ghostscript_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] +git-tree-sha1 = "43ba3d3c82c18d88471cfd2924931658838c9d8f" +uuid = "61579ee1-b43e-5ca0-a5da-69d92c66a64b" +version = "9.55.0+4" + [[deps.Git]] deps = ["Git_jll"] -git-tree-sha1 = "51764e6c2e84c37055e846c516e9015b4a291c7d" +git-tree-sha1 = "04eff47b1354d702c3a85e8ab23d539bb7d5957e" uuid = "d7ba0133-e1db-5d97-8f8c-041e4b3a1eb2" -version = "1.3.0" +version = "1.3.1" [[deps.Git_jll]] deps = ["Artifacts", "Expat_jll", "JLLWrappers", "LibCURL_jll", "Libdl", "Libiconv_jll", "OpenSSL_jll", "PCRE2_jll", "Zlib_jll"] -git-tree-sha1 = "d8be4aab0f4e043cc40984e9097417307cce4c03" +git-tree-sha1 = "d18fb8a1f3609361ebda9bf029b60fd0f120c809" uuid = "f8c6e375-362e-5223-8a59-34ff63f689eb" -version = "2.36.1+2" +version = "2.44.0+2" [[deps.Glib_jll]] deps = ["Artifacts", "Gettext_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Libiconv_jll", "Libmount_jll", "PCRE2_jll", "Zlib_jll"] -git-tree-sha1 = "e94c92c7bf4819685eb80186d51c43e71d4afa17" +git-tree-sha1 = "359a1ba2e320790ddbe4ee8b4d54a305c0ea2aff" uuid = "7746bdde-850d-59dc-9ae8-88ece973131d" -version = "2.76.5+0" - -[[deps.Glob]] -git-tree-sha1 = "97285bbd5230dd766e9ef6749b80fc617126d496" -uuid = "c27321d9-0574-5035-807b-f59d2c89b15c" -version = "1.3.1" +version = "2.80.0+0" [[deps.Graphics]] deps = ["Colors", "LinearAlgebra", "NaNMath"] @@ -734,9 +770,9 @@ version = "1.3.14+0" [[deps.Graphs]] deps = ["ArnoldiMethod", "Compat", "DataStructures", "Distributed", "Inflate", "LinearAlgebra", "Random", "SharedArrays", "SimpleTraits", "SparseArrays", "Statistics"] -git-tree-sha1 = "899050ace26649433ef1af25bc17a815b3db52b7" +git-tree-sha1 = "3863330da5466410782f2bffc64f3d505a6a8334" uuid = "86223c79-3864-5bf0-83f7-82e725a168b6" -version = "1.9.0" +version = "1.10.0" [[deps.Grisu]] git-tree-sha1 = "53bb909d1151e57e2484c3d1b53e19552b887fb2" @@ -745,27 +781,33 @@ version = "1.0.2" [[deps.H5Zblosc]] deps = ["Blosc", "HDF5"] -git-tree-sha1 = "d3966da25e48c05c31cd9786fd201627877612a2" +git-tree-sha1 = "d778420e524bcf56066e8c63c7aa315ae7269da2" uuid = "c8ec2601-a99c-407f-b158-e79c03c2f5f7" -version = "0.1.1" +version = "0.1.2" [[deps.HDF5]] -deps = ["Compat", "HDF5_jll", "Libdl", "Mmap", "Printf", "Random", "Requires", "UUIDs"] -git-tree-sha1 = "114e20044677badbc631ee6fdc80a67920561a29" +deps = ["Compat", "HDF5_jll", "Libdl", "MPIPreferences", "Mmap", "Preferences", "Printf", "Random", "Requires", "UUIDs"] +git-tree-sha1 = "e856eef26cf5bf2b0f95f8f4fc37553c72c8641c" uuid = "f67ccb44-e63f-5c2f-98bd-6dc0ccc4ba2f" -version = "0.16.16" +version = "0.17.2" + + [deps.HDF5.extensions] + MPIExt = "MPI" + + [deps.HDF5.weakdeps] + MPI = "da04e1cc-30fd-572f-bb4f-1f8673147195" [[deps.HDF5_jll]] -deps = ["Artifacts", "JLLWrappers", "LibCURL_jll", "Libdl", "OpenSSL_jll", "Pkg", "Zlib_jll"] -git-tree-sha1 = "4cc2bb72df6ff40b055295fdef6d92955f9dede8" +deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LLVMOpenMP_jll", "LazyArtifacts", "LibCURL_jll", "Libdl", "MPICH_jll", "MPIPreferences", "MPItrampoline_jll", "MicrosoftMPI_jll", "OpenMPI_jll", "OpenSSL_jll", "TOML", "Zlib_jll", "libaec_jll"] +git-tree-sha1 = "38c8874692d48d5440d5752d6c74b0c6b0b60739" uuid = "0234f1f7-429e-5d53-9886-15a909be8d59" -version = "1.12.2+2" +version = "1.14.2+1" [[deps.HTTP]] deps = ["Base64", "CodecZlib", "ConcurrentUtilities", "Dates", "ExceptionUnwrapping", "Logging", "LoggingExtras", "MbedTLS", "NetworkOptions", "OpenSSL", "Random", "SimpleBufferStream", "Sockets", "URIs", "UUIDs"] -git-tree-sha1 = "abbbb9ec3afd783a7cbd82ef01dcd088ea051398" +git-tree-sha1 = "2c3ec1f90bb4a8f7beafb0cffea8a4c3f4e636ab" uuid = "cd3eb016-35fb-5094-929b-558a96fad6f3" -version = "1.10.1" +version = "1.10.6" [[deps.HarfBuzz_jll]] deps = ["Artifacts", "Cairo_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "Graphite2_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Pkg"] @@ -773,17 +815,29 @@ git-tree-sha1 = "129acf094d168394e80ee1dc4bc06ec835e510a3" uuid = "2e76f6c2-a576-52d4-95c1-20adfe4de566" version = "2.8.1+1" +[[deps.Hwloc_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "ca0f6bf568b4bfc807e7537f081c81e35ceca114" +uuid = "e33a78d0-f292-5ffc-b300-72abe9b543c8" +version = "2.10.0+0" + +[[deps.HypergeometricFunctions]] +deps = ["DualNumbers", "LinearAlgebra", "OpenLibm_jll", "SpecialFunctions"] +git-tree-sha1 = "f218fe3736ddf977e0e772bc9a586b2383da2685" +uuid = "34004b35-14d8-5ef3-9330-4cdb6864b03a" +version = "0.3.23" + [[deps.IOCapture]] deps = ["Logging", "Random"] -git-tree-sha1 = "d75853a0bdbfb1ac815478bacd89cd27b550ace6" +git-tree-sha1 = "8b72179abc660bfab5e28472e019392b97d0985c" uuid = "b5f81e59-6552-4d32-b1f0-c071b021bf89" -version = "0.2.3" +version = "0.2.4" [[deps.IRTools]] deps = ["InteractiveUtils", "MacroTools", "Test"] -git-tree-sha1 = "8aa91235360659ca7560db43a7d57541120aa31d" +git-tree-sha1 = "d05027a62b4c9a2223820a9fdeae1110ad3946a5" uuid = "7869d1d1-7146-5819-86e3-90919afe41df" -version = "0.4.11" +version = "0.4.13" [[deps.ImageAxes]] deps = ["AxisArrays", "ImageBase", "ImageCore", "Reexport", "SimpleTraits"] @@ -828,16 +882,16 @@ uuid = "82e4d734-157c-48bb-816b-45c225c6df19" version = "0.6.7" [[deps.ImageMagick]] -deps = ["FileIO", "ImageCore", "ImageMagick_jll", "InteractiveUtils"] -git-tree-sha1 = "b0b765ff0b4c3ee20ce6740d843be8dfce48487c" +deps = ["FileIO", "ImageCore", "ImageMagick_jll", "InteractiveUtils", "Libdl", "Pkg", "Random"] +git-tree-sha1 = "5bc1cb62e0c5f1005868358db0692c994c3a13c6" uuid = "6218d12a-5da1-5696-b52f-db25d2ecc6d1" -version = "1.3.0" +version = "1.2.1" [[deps.ImageMagick_jll]] -deps = ["JpegTurbo_jll", "Libdl", "Libtiff_jll", "Pkg", "Zlib_jll", "libpng_jll"] -git-tree-sha1 = "1c0a2295cca535fabaf2029062912591e9b61987" +deps = ["Artifacts", "Ghostscript_jll", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Libtiff_jll", "OpenJpeg_jll", "Zlib_jll", "libpng_jll"] +git-tree-sha1 = "d65554bad8b16d9562050c67e7223abf91eaba2f" uuid = "c73af94c-d91f-53ed-93a7-00f77d67a9d7" -version = "6.9.10-12+3" +version = "6.9.13+0" [[deps.ImageMetadata]] deps = ["AxisArrays", "ImageAxes", "ImageBase", "ImageCore"] @@ -883,9 +937,9 @@ version = "0.25.3" [[deps.Imath_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "3d09a9f60edf77f8a4d99f9e015e8fbf9989605d" +git-tree-sha1 = "0936ba688c6d201805a83da835b55c61a180db52" uuid = "905a6f67-0a94-5f89-b386-d35d92009cd1" -version = "3.1.7+0" +version = "3.1.11+0" [[deps.IndirectArrays]] git-tree-sha1 = "012e604e1c7458645cb8b436f8fba789a51b257f" @@ -920,35 +974,30 @@ uuid = "1d092043-8f09-5a30-832f-7509e371ab51" version = "0.1.5" [[deps.IntelOpenMP_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "ad37c091f7d7daf900963171600d7c1c5c3ede32" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "be50fe8df3acbffa0274a744f1a99d29c45a57f4" uuid = "1d5cc7b8-4909-519e-a0f8-d0f5ad9712d0" -version = "2023.2.0+0" +version = "2024.1.0+0" [[deps.InteractiveUtils]] deps = ["Markdown"] uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240" -[[deps.InternedStrings]] -deps = ["Random", "Test"] -git-tree-sha1 = "eb05b5625bc5d821b8075a77e4c421933e20c76b" -uuid = "7d512f48-7fb1-5a58-b986-67e6dc259f01" -version = "0.7.0" - [[deps.Interpolations]] -deps = ["Adapt", "AxisAlgorithms", "ChainRulesCore", "LinearAlgebra", "OffsetArrays", "Random", "Ratios", "Requires", "SharedArrays", "SparseArrays", "StaticArrays", "WoodburyMatrices"] -git-tree-sha1 = "721ec2cf720536ad005cb38f50dbba7b02419a15" +deps = ["AxisAlgorithms", "ChainRulesCore", "LinearAlgebra", "OffsetArrays", "Random", "Ratios", "Requires", "SharedArrays", "SparseArrays", "StaticArrays", "WoodburyMatrices"] +git-tree-sha1 = "00a19d6ab0cbdea2978fc23c5a6482e02c192501" uuid = "a98d9a8b-a2ab-59e6-89dd-64a1c18fca59" -version = "0.14.7" +version = "0.14.0" [[deps.IntervalSets]] -deps = ["Dates", "Random"] -git-tree-sha1 = "3d8866c029dd6b16e69e0d4a939c4dfcb98fac47" +git-tree-sha1 = "dba9ddf07f77f60450fe5d2e2beb9854d9a49bd0" uuid = "8197267c-284f-5f27-9208-e0e47529a953" -version = "0.7.8" -weakdeps = ["Statistics"] +version = "0.7.10" +weakdeps = ["Random", "RecipesBase", "Statistics"] [deps.IntervalSets.extensions] + IntervalSetsRandomExt = "Random" + IntervalSetsRecipesBaseExt = "RecipesBase" IntervalSetsStatisticsExt = "Statistics" [[deps.InvertedIndices]] @@ -962,9 +1011,15 @@ uuid = "92d709cd-6900-40b7-9082-c6be49f344b6" version = "0.2.2" [[deps.IterTools]] -git-tree-sha1 = "4ced6667f9974fc5c5943fa5e2ef1ca43ea9e450" +git-tree-sha1 = "42d5f897009e7ff2cf88db414a389e5ed1bdd023" uuid = "c8e1da08-722c-5040-9ed9-7db0dc04731e" -version = "1.8.0" +version = "1.10.0" + +[[deps.IterationControl]] +deps = ["EarlyStopping", "InteractiveUtils"] +git-tree-sha1 = "e663925ebc3d93c1150a7570d114f9ea2f664726" +uuid = "b3c1a2ee-3fec-4384-bf48-272ea71de57c" +version = "0.5.4" [[deps.IteratorInterfaceExtensions]] git-tree-sha1 = "a3f24677c21f5bbe9d2a714f95dcd58337fb2856" @@ -973,15 +1028,15 @@ version = "1.0.0" [[deps.JLD]] deps = ["Compat", "FileIO", "H5Zblosc", "HDF5", "Printf"] -git-tree-sha1 = "ec6afa4fd3402e4dd5b15b3e5dd2f7dd52043ce8" +git-tree-sha1 = "e42f32690d41f758e126a48ee43459ef91179d1f" uuid = "4138dd39-2aa7-5051-a626-17a0bb65d9c8" -version = "0.13.3" +version = "0.13.5" [[deps.JLD2]] deps = ["FileIO", "MacroTools", "Mmap", "OrderedCollections", "Pkg", "PrecompileTools", "Printf", "Reexport", "Requires", "TranscodingStreams", "UUIDs"] -git-tree-sha1 = "9bbb5130d3b4fa52846546bca4791ecbdfb52730" +git-tree-sha1 = "5ea6acdd53a51d897672edb694e3cc2912f3f8a7" uuid = "033835bb-8acc-5ee8-8aae-3f567f8a3819" -version = "0.4.38" +version = "0.4.46" [[deps.JLFzf]] deps = ["Pipe", "REPL", "Random", "fzf_jll"] @@ -1001,23 +1056,17 @@ git-tree-sha1 = "31e996f0a15c7b280ba9f76636b3ff9e2ae58c9a" uuid = "682c06a0-de6a-54ab-a142-c8b1cf79cde6" version = "0.21.4" -[[deps.JSON3]] -deps = ["Dates", "Mmap", "Parsers", "PrecompileTools", "StructTypes", "UUIDs"] -git-tree-sha1 = "95220473901735a0f4df9d1ca5b171b568b2daa3" -uuid = "0f8b85d8-7281-11e9-16c2-39a750bddbf1" -version = "1.13.2" - [[deps.JpegTurbo]] deps = ["CEnum", "FileIO", "ImageCore", "JpegTurbo_jll", "TOML"] -git-tree-sha1 = "d65930fa2bc96b07d7691c652d701dcbe7d9cf0b" +git-tree-sha1 = "fa6d0bcff8583bac20f1ffa708c3913ca605c611" uuid = "b835a17e-a41a-41e7-81f0-2f016b05efe0" -version = "0.1.4" +version = "0.1.5" [[deps.JpegTurbo_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "6f2675ef130a300a112286de91973805fcc5ffbc" +git-tree-sha1 = "3336abae9a713d2210bb57ab484b1e065edd7d23" uuid = "aacddb02-875f-59d6-b918-886e6ef4fbf8" -version = "2.1.91+0" +version = "3.0.2+0" [[deps.JuliaNVTXCallbacks_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1033,9 +1082,9 @@ version = "0.2.4" [[deps.KernelAbstractions]] deps = ["Adapt", "Atomix", "InteractiveUtils", "LinearAlgebra", "MacroTools", "PrecompileTools", "Requires", "SparseArrays", "StaticArrays", "UUIDs", "UnsafeAtomics", "UnsafeAtomicsLLVM"] -git-tree-sha1 = "b0737cbbe1c8da6f1139d1c23e35e7cea129c0af" +git-tree-sha1 = "ed7167240f40e62d97c1f5f7735dea6de3cc5c49" uuid = "63c18a36-062a-441e-b654-da1e3ab1ce7c" -version = "0.9.13" +version = "0.9.18" [deps.KernelAbstractions.extensions] EnzymeExt = "EnzymeCore" @@ -1044,10 +1093,10 @@ version = "0.9.13" EnzymeCore = "f151be2c-9106-41f4-ab19-57ee4f262869" [[deps.LAME_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "f6250b16881adf048549549fba48b1161acdac8c" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "170b660facf5df5de098d866564877e119141cbd" uuid = "c1c5ebd0-6772-5130-a774-d5fcae4a789d" -version = "3.100.1+0" +version = "3.100.2+0" [[deps.LERC_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1057,9 +1106,9 @@ version = "3.0.0+1" [[deps.LLVM]] deps = ["CEnum", "LLVMExtra_jll", "Libdl", "Preferences", "Printf", "Requires", "Unicode"] -git-tree-sha1 = "c879e47398a7ab671c782e02b51a4456794a7fa3" +git-tree-sha1 = "839c82932db86740ae729779e610f07a1640be9a" uuid = "929cbde3-209d-540e-8aea-75f648917ca0" -version = "6.4.0" +version = "6.6.3" weakdeps = ["BFloat16s"] [deps.LLVM.extensions] @@ -1067,9 +1116,9 @@ weakdeps = ["BFloat16s"] [[deps.LLVMExtra_jll]] deps = ["Artifacts", "JLLWrappers", "LazyArtifacts", "Libdl", "TOML"] -git-tree-sha1 = "98eaee04d96d973e79c25d49167668c5c8fb50e2" +git-tree-sha1 = "88b916503aac4fb7f701bb625cd84ca5dd1677bc" uuid = "dad2f222-ce93-54a1-a47d-0025e8a3acab" -version = "0.0.27+1" +version = "0.0.29+0" [[deps.LLVMLoopInfo]] git-tree-sha1 = "2e5c102cfc41f48ae4740c7eca7743cc7e7b75ea" @@ -1077,16 +1126,16 @@ uuid = "8b046642-f1f6-4319-8d3c-209ddc03c586" version = "1.0.0" [[deps.LLVMOpenMP_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "f689897ccbe049adb19a065c495e75f372ecd42b" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "d986ce2d884d49126836ea94ed5bfb0f12679713" uuid = "1d63c593-3942-5779-bab2-d838dc0a180e" -version = "15.0.4+0" +version = "15.0.7+0" [[deps.LZO_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "e5b909bcf985c5e2605737d2ce278ed791b89be6" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "70c5da094887fd2cae843b8db33920bac4b6f07d" uuid = "dd4b983a-f0e5-5f8d-a1b7-129d4a5fb1ac" -version = "2.10.1+0" +version = "2.10.2+0" [[deps.LaTeXStrings]] git-tree-sha1 = "50901ebc375ed41dbf8058da26f9de442febbbec" @@ -1094,10 +1143,10 @@ uuid = "b964fa9f-0449-5b57-a5c2-d3ea65f4040f" version = "1.3.1" [[deps.Latexify]] -deps = ["Formatting", "InteractiveUtils", "LaTeXStrings", "MacroTools", "Markdown", "OrderedCollections", "Printf", "Requires"] -git-tree-sha1 = "f428ae552340899a935973270b8d98e5a31c49fe" +deps = ["Format", "InteractiveUtils", "LaTeXStrings", "MacroTools", "Markdown", "OrderedCollections", "Requires"] +git-tree-sha1 = "e0b5cd21dc1b44ec6e64f351976f961e6f31d6c4" uuid = "23fbe1c1-3f47-55db-b15f-69d7ec21a316" -version = "0.16.1" +version = "0.16.3" [deps.Latexify.extensions] DataFramesExt = "DataFrames" @@ -1107,6 +1156,12 @@ version = "0.16.1" DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0" SymEngine = "123dc426-2d89-5057-bbad-38513e3affd8" +[[deps.LatinHypercubeSampling]] +deps = ["Random", "StableRNGs", "StatsBase", "Test"] +git-tree-sha1 = "825289d43c753c7f1bf9bed334c253e9913997f8" +uuid = "a5e1c1ea-c99a-51d3-a14d-a9a37257b02d" +version = "1.9.0" + [[deps.LazilyInitializedFields]] git-tree-sha1 = "8f7f3cabab0fd1800699663533b6d5cb3fc0e612" uuid = "0e77f7df-68c5-4e49-93ce-4cd80f5598bf" @@ -1121,24 +1176,41 @@ git-tree-sha1 = "a560dd966b386ac9ae60bdd3a3d3a326062d3c3e" uuid = "8cdb02fc-e678-4876-92c5-9defec4f444e" version = "0.3.1" +[[deps.LearnAPI]] +deps = ["InteractiveUtils", "Statistics"] +git-tree-sha1 = "ec695822c1faaaa64cee32d0b21505e1977b4809" +uuid = "92ad9a40-7767-427a-9ee6-6e577f1266cb" +version = "0.1.0" + +[[deps.LearnBase]] +deps = ["LinearAlgebra", "StatsBase"] +git-tree-sha1 = "47e6f4623c1db88570c7a7fa66c6528b92ba4725" +uuid = "7f8f8fb0-2700-5f03-b4bd-41f8cfc144b6" +version = "0.3.0" + [[deps.LibCURL]] deps = ["LibCURL_jll", "MozillaCACerts_jll"] uuid = "b27032c2-a3e7-50c8-80cd-2d36dbcbfd21" -version = "0.6.3" +version = "0.6.4" [[deps.LibCURL_jll]] deps = ["Artifacts", "LibSSH2_jll", "Libdl", "MbedTLS_jll", "Zlib_jll", "nghttp2_jll"] uuid = "deac9b47-8bc7-5906-a0fe-35ac56dc84c0" -version = "7.84.0+0" +version = "8.4.0+0" [[deps.LibGit2]] -deps = ["Base64", "NetworkOptions", "Printf", "SHA"] +deps = ["Base64", "LibGit2_jll", "NetworkOptions", "Printf", "SHA"] uuid = "76f85450-5226-5b5a-8eaa-529ad045b433" +[[deps.LibGit2_jll]] +deps = ["Artifacts", "LibSSH2_jll", "Libdl", "MbedTLS_jll"] +uuid = "e37daf67-58a4-590a-8e99-b0245dd2ffc5" +version = "1.6.4+0" + [[deps.LibSSH2_jll]] deps = ["Artifacts", "Libdl", "MbedTLS_jll"] uuid = "29816b5a-b9ab-546f-933c-edad1886dfa8" -version = "1.10.2+0" +version = "1.11.0+1" [[deps.Libdl]] uuid = "8f399da3-3557-5675-b5ff-fb832c97cbdb" @@ -1150,10 +1222,10 @@ uuid = "e9f186c6-92d2-5b65-8a66-fee21dc1b490" version = "3.2.2+1" [[deps.Libgcrypt_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgpg_error_jll", "Pkg"] -git-tree-sha1 = "64613c82a59c120435c067c2b809fc61cf5166ae" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgpg_error_jll"] +git-tree-sha1 = "9fd170c4bbfd8b935fdc5f8b7aa33532c991a673" uuid = "d4300ac3-e22c-5743-9152-c294e39db1e4" -version = "1.8.7+0" +version = "1.8.11+0" [[deps.Libglvnd_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_libX11_jll", "Xorg_libXext_jll"] @@ -1162,10 +1234,10 @@ uuid = "7e76a0d4-f3c7-5321-8279-8d96eeed0f29" version = "1.6.0+0" [[deps.Libgpg_error_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "c333716e46366857753e273ce6a69ee0945a6db9" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "fbb1f2bef882392312feb1ede3615ddc1e9b99ed" uuid = "7add5ba3-2f88-524e-9cd5-f83b8a55f7b8" -version = "1.42.0+0" +version = "1.49.0+0" [[deps.Libiconv_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -1174,32 +1246,44 @@ uuid = "94ce4f54-9a6c-5748-9c1c-f9c7231a4531" version = "1.17.0+0" [[deps.Libmount_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "9c30530bf0effd46e15e0fdcf2b8636e78cbbd73" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "4b683b19157282f50bfd5dcaa2efe5295814ea22" uuid = "4b2f31a3-9ecc-558c-b454-b3730dcb73e9" -version = "2.35.0+0" +version = "2.40.0+0" [[deps.Libtiff_jll]] -deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "LERC_jll", "Libdl", "Pkg", "Zlib_jll", "Zstd_jll"] -git-tree-sha1 = "3eb79b0ca5764d4799c06699573fd8f533259713" +deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "LERC_jll", "Libdl", "XZ_jll", "Zlib_jll", "Zstd_jll"] +git-tree-sha1 = "2da088d113af58221c52828a80378e16be7d037a" uuid = "89763e89-9b03-5906-acba-b20f662cd828" -version = "4.4.0+0" +version = "4.5.1+1" [[deps.Libuuid_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "7f3efec06033682db852f8b3bc3c1d2b0a0ab066" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "27fd5cc10be85658cacfe11bb81bee216af13eda" uuid = "38a345b3-de98-5d2b-a5d3-14cd9215e700" -version = "2.36.0+0" +version = "2.40.0+0" [[deps.LinearAlgebra]] deps = ["Libdl", "OpenBLAS_jll", "libblastrampoline_jll"] uuid = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e" +[[deps.LittleCMS_jll]] +deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Libtiff_jll"] +git-tree-sha1 = "08ed30575ffc5651a50d3291beaf94c3e7996e55" +uuid = "d3a379c0-f9a3-5b72-a4c0-6bf4d2e8af0f" +version = "2.15.0+0" + +[[deps.LocalRegistry]] +deps = ["Random", "RegistryInstances", "RegistryTools", "TOML", "UUIDs"] +git-tree-sha1 = "d01c44f41135b4e39656201ae77a95aeba9fe395" +uuid = "89398ba2-070a-4b16-a995-9893c55d93cf" +version = "0.5.6" + [[deps.LogExpFunctions]] deps = ["DocStringExtensions", "IrrationalConstants", "LinearAlgebra"] -git-tree-sha1 = "7d6dd4e9212aebaeed356de34ccf262a3cd415aa" +git-tree-sha1 = "18144f3e9cbe9b15b070288eef858f71b291ce37" uuid = "2ab3a3ac-af41-5b50-aa03-7779005ae688" -version = "0.3.26" +version = "0.3.27" [deps.LogExpFunctions.extensions] LogExpFunctionsChainRulesCoreExt = "ChainRulesCore" @@ -1226,23 +1310,87 @@ git-tree-sha1 = "6c26c5e8a4203d43b5497be3ec5d4e0c3cde240a" uuid = "5ced341a-0733-55b8-9ab6-a4889d929147" version = "1.9.4+0" -[[deps.MAT]] -deps = ["BufferedStreams", "CodecZlib", "HDF5", "SparseArrays"] -git-tree-sha1 = "ed1cf0a322d78cee07718bed5fd945e2218c35a1" -uuid = "23992714-dd62-5051-b70f-ba57cb901cac" -version = "0.10.6" - [[deps.MKL_jll]] -deps = ["Artifacts", "IntelOpenMP_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "Pkg"] -git-tree-sha1 = "eb006abbd7041c28e0d16260e50a24f8f9104913" +deps = ["Artifacts", "IntelOpenMP_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "oneTBB_jll"] +git-tree-sha1 = "80b2833b56d466b3858d565adcd16a4a05f2089b" uuid = "856f044c-d86e-5d09-b602-aeab76dc8ba7" -version = "2023.2.0+0" +version = "2024.1.0+0" + +[[deps.MLDataPattern]] +deps = ["LearnBase", "MLLabelUtils", "Random", "SparseArrays", "StatsBase"] +git-tree-sha1 = "e99514e96e8b8129bb333c69e063a56ab6402b5b" +uuid = "9920b226-0b2a-5f5f-9153-9aa70a013f8b" +version = "0.5.4" + +[[deps.MLDataUtils]] +deps = ["DataFrames", "DelimitedFiles", "LearnBase", "MLDataPattern", "MLLabelUtils", "Statistics", "StatsBase"] +git-tree-sha1 = "ee54803aea12b9c8ee972e78ece11ac6023715e6" +uuid = "cc2ba9b6-d476-5e6d-8eaf-a92d5412d41d" +version = "0.5.4" + +[[deps.MLFlowClient]] +deps = ["Dates", "FilePathsBase", "HTTP", "JSON", "ShowCases", "URIs", "UUIDs"] +git-tree-sha1 = "5cc2a5453856e79f4772269fbe6b19fcdcba391a" +uuid = "64a0f543-368b-4a9a-827a-e71edb2a0b83" +version = "0.4.7" + +[[deps.MLJ]] +deps = ["CategoricalArrays", "ComputationalResources", "Distributed", "Distributions", "LinearAlgebra", "MLJBase", "MLJEnsembles", "MLJFlow", "MLJIteration", "MLJModels", "MLJTuning", "OpenML", "Pkg", "ProgressMeter", "Random", "Reexport", "ScientificTypes", "StatisticalMeasures", "Statistics", "StatsBase", "Tables"] +git-tree-sha1 = "58d17a367ee211ade6e53f83a9cc5adf9d26f833" +uuid = "add582a8-e3ab-11e8-2d5e-e98b27df1bc7" +version = "0.20.0" + +[[deps.MLJBase]] +deps = ["CategoricalArrays", "CategoricalDistributions", "ComputationalResources", "Dates", "DelimitedFiles", "Distributed", "Distributions", "InteractiveUtils", "InvertedIndices", "LearnAPI", "LinearAlgebra", "MLJModelInterface", "Missings", "OrderedCollections", "Parameters", "PrettyTables", "ProgressMeter", "Random", "RecipesBase", "Reexport", "ScientificTypes", "Serialization", "StatisticalMeasuresBase", "StatisticalTraits", "Statistics", "StatsBase", "Tables"] +git-tree-sha1 = "17d160e8f796ab5ceb4c017bc4019d21fd686a35" +uuid = "a7f614a8-145f-11e9-1d2a-a57a1082229d" +version = "1.2.1" +weakdeps = ["StatisticalMeasures"] + + [deps.MLJBase.extensions] + DefaultMeasuresExt = "StatisticalMeasures" + +[[deps.MLJEnsembles]] +deps = ["CategoricalArrays", "CategoricalDistributions", "ComputationalResources", "Distributed", "Distributions", "MLJModelInterface", "ProgressMeter", "Random", "ScientificTypesBase", "StatisticalMeasuresBase", "StatsBase"] +git-tree-sha1 = "456d99c46a9eab977308122c829c52dfa1677c03" +uuid = "50ed68f4-41fd-4504-931a-ed422449fee0" +version = "0.4.1" + +[[deps.MLJFlow]] +deps = ["MLFlowClient", "MLJBase", "MLJModelInterface"] +git-tree-sha1 = "dc0de70a794c6d4c1aa4bde8196770c6b6e6b550" +uuid = "7b7b8358-b45c-48ea-a8ef-7ca328ad328f" +version = "0.2.0" -[[deps.MLDatasets]] -deps = ["CSV", "Chemfiles", "DataDeps", "DataFrames", "DelimitedFiles", "FileIO", "FixedPointNumbers", "GZip", "Glob", "HDF5", "ImageShow", "JLD2", "JSON3", "LazyModules", "MAT", "MLUtils", "NPZ", "Pickle", "Printf", "Requires", "SparseArrays", "Statistics", "Tables"] -git-tree-sha1 = "aab72207b3c687086a400be710650a57494992bd" -uuid = "eb30cadb-4394-5ae3-aed4-317e484a6458" -version = "0.7.14" +[[deps.MLJIteration]] +deps = ["IterationControl", "MLJBase", "Random", "Serialization"] +git-tree-sha1 = "1e909ee09417ebd18559c4d9c15febff887192df" +uuid = "614be32b-d00c-4edb-bd02-1eb411ab5e55" +version = "0.6.1" + +[[deps.MLJModelInterface]] +deps = ["Random", "ScientificTypesBase", "StatisticalTraits"] +git-tree-sha1 = "d2a45e1b5998ba3fdfb6cfe0c81096d4c7fb40e7" +uuid = "e80e1ace-859a-464e-9ed9-23947d8ae3ea" +version = "1.9.6" + +[[deps.MLJModels]] +deps = ["CategoricalArrays", "CategoricalDistributions", "Combinatorics", "Dates", "Distances", "Distributions", "InteractiveUtils", "LinearAlgebra", "MLJModelInterface", "Markdown", "OrderedCollections", "Parameters", "Pkg", "PrettyPrinting", "REPL", "Random", "RelocatableFolders", "ScientificTypes", "StatisticalTraits", "Statistics", "StatsBase", "Tables"] +git-tree-sha1 = "410da88e0e6ece5467293d2c76b51b7c6df7d072" +uuid = "d491faf4-2d78-11e9-2867-c94bc002c0b7" +version = "0.16.17" + +[[deps.MLJTuning]] +deps = ["ComputationalResources", "Distributed", "Distributions", "LatinHypercubeSampling", "MLJBase", "ProgressMeter", "Random", "RecipesBase", "StatisticalMeasuresBase"] +git-tree-sha1 = "4a2c14b9529753db3ece53fd635c609220200507" +uuid = "03970b2e-30c4-11ea-3135-d1576263f10f" +version = "0.8.4" + +[[deps.MLLabelUtils]] +deps = ["LearnBase", "MappedArrays", "StatsBase"] +git-tree-sha1 = "fd75d4b0c4016e047bbb6263eecf7ae3891af522" +uuid = "66a33bbf-0c2b-5fc8-a008-9da813334f0a" +version = "0.5.7" [[deps.MLStyle]] git-tree-sha1 = "bc38dff0548128765760c79eb7388a4b37fae2c8" @@ -1251,15 +1399,33 @@ version = "0.4.17" [[deps.MLUtils]] deps = ["ChainRulesCore", "Compat", "DataAPI", "DelimitedFiles", "FLoops", "NNlib", "Random", "ShowCases", "SimpleTraits", "Statistics", "StatsBase", "Tables", "Transducers"] -git-tree-sha1 = "3504cdb8c2bc05bde4d4b09a81b01df88fcbbba0" +git-tree-sha1 = "b45738c2e3d0d402dffa32b2c1654759a2ac35a4" uuid = "f1d291b0-491e-4a28-83b9-f70985020b54" -version = "0.4.3" +version = "0.4.4" + +[[deps.MPICH_jll]] +deps = ["Artifacts", "CompilerSupportLibraries_jll", "Hwloc_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML"] +git-tree-sha1 = "d8a7bf80c88326ebc98b7d38437208c3a0f20725" +uuid = "7cb0a576-ebde-5e09-9194-50597f1243b4" +version = "4.2.1+0" + +[[deps.MPIPreferences]] +deps = ["Libdl", "Preferences"] +git-tree-sha1 = "c105fe467859e7f6e9a852cb15cb4301126fac07" +uuid = "3da0fdf6-3ccc-4f1b-acd9-58baa6c99267" +version = "0.1.11" + +[[deps.MPItrampoline_jll]] +deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML"] +git-tree-sha1 = "3f884417b47a96d87e7c6219f8f7b30ce67f4f2c" +uuid = "f1f71cc9-e9ae-5b93-9b94-4fe0e1ad3748" +version = "5.3.3+0" [[deps.MacroTools]] deps = ["Markdown", "Random"] -git-tree-sha1 = "9ee1618cbf5240e6d4e0371d6f24065083f60c48" +git-tree-sha1 = "2fa9ee3e63fd3a4f7a9a4f4744a52f4856de82df" uuid = "1914dd2f-81c6-5fcd-8719-6d5c9610ff09" -version = "0.5.11" +version = "0.5.13" [[deps.MappedArrays]] git-tree-sha1 = "2dab0221fe2b0f2cb6754eaa743cc266339f527e" @@ -1285,7 +1451,7 @@ version = "1.1.9" [[deps.MbedTLS_jll]] deps = ["Artifacts", "Libdl"] uuid = "c8ffd9c3-330d-5841-b78e-0817d7145fa1" -version = "2.28.2+0" +version = "2.28.2+1" [[deps.Measures]] git-tree-sha1 = "c13304c81eec1ed3af7fc20e75fb6b26092a1102" @@ -1304,22 +1470,26 @@ git-tree-sha1 = "629afd7d10dbc6935ec59b32daeb33bc4460a42e" uuid = "128add7d-3638-4c79-886c-908ea0c25c34" version = "0.1.4" +[[deps.MicrosoftMPI_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] +git-tree-sha1 = "f12a29c4400ba812841c6ace3f4efbb6dbb3ba01" +uuid = "9237b28f-5490-5468-be7b-bb81f5f5e6cf" +version = "10.1.4+2" + [[deps.Missings]] deps = ["DataAPI"] -git-tree-sha1 = "f66bdc5de519e8f8ae43bdc598782d35a25b1272" +git-tree-sha1 = "ec4f7fbeab05d7747bdf98eb74d130a2a2ed298d" uuid = "e1d29d7a-bbdc-5cf2-9ac0-f12de2c33e28" -version = "1.1.0" +version = "1.2.0" [[deps.Mmap]] uuid = "a63ad114-7e13-5084-954f-fe012c677804" [[deps.MonogenicFilterFlux]] -deps = ["AbstractFFTs", "Adapt", "ArrayInterface", "CUDA", "ChainRules", "ChainRulesCore", "ContinuousWavelets", "DSP", "Dates", "Distributed", "DistributedArrays", "FFTW", "FileIO", "Flux", "FourierFilterFlux", "HDF5", "Images", "Interpolations", "JLD", "JLD2", "LaTeXStrings", "LinearAlgebra", "MLDatasets", "NNlib", "Plots", "PyCall", "PyPlot", "Random", "RecipesBase", "Reexport", "ScatteringTransform", "SharedArrays", "SpecialFunctions", "Statistics", "Wavelets", "Zygote"] -git-tree-sha1 = "a1ab22c10d856b7457cca894a848f250a33e32ad" -repo-rev = "main" -repo-url = "https://github.com/wchak/rotated_monogenic.git" -uuid = "08a3b3d4-a326-42ad-8bf2-aae8cae0b9e1" -version = "0.1.0" +deps = ["AbstractFFTs", "Adapt", "CUDA", "ContinuousWavelets", "FFTW", "Flux", "FourierFilterFlux", "Images", "LinearAlgebra", "PyPlot", "RecipesBase", "Reexport", "Zygote", "cuDNN"] +path = "../MonogenicFilterFlux.jl" +uuid = "27e6407a-9159-4acb-a68a-dfae66d408cf" +version = "0.1.2" [[deps.MosaicViews]] deps = ["MappedArrays", "OffsetArrays", "PaddedViews", "StackViews"] @@ -1329,13 +1499,13 @@ version = "0.3.4" [[deps.MozillaCACerts_jll]] uuid = "14a3606d-f60d-562e-9121-12d972cd8159" -version = "2022.10.11" +version = "2023.1.10" [[deps.NNlib]] deps = ["Adapt", "Atomix", "ChainRulesCore", "GPUArraysCore", "KernelAbstractions", "LinearAlgebra", "Pkg", "Random", "Requires", "Statistics"] -git-tree-sha1 = "ac86d2944bf7a670ac8bf0f7ec099b5898abcc09" +git-tree-sha1 = "5055845dd316575ae2fc1f6dcb3545ff15fe547a" uuid = "872c559c-99b0-510c-b3b7-b6c96a88d5cd" -version = "0.9.8" +version = "0.9.14" [deps.NNlib.extensions] NNlibAMDGPUExt = "AMDGPU" @@ -1349,17 +1519,11 @@ version = "0.9.8" EnzymeCore = "f151be2c-9106-41f4-ab19-57ee4f262869" cuDNN = "02a925ec-e4fe-4b08-9a7e-0d78e3d38ccd" -[[deps.NPZ]] -deps = ["FileIO", "ZipFile"] -git-tree-sha1 = "60a8e272fe0c5079363b28b0953831e2dd7b7e6f" -uuid = "15e1cf62-19b3-5cfa-8e77-841668bca605" -version = "0.4.3" - [[deps.NVTX]] deps = ["Colors", "JuliaNVTXCallbacks_jll", "Libdl", "NVTX_jll"] -git-tree-sha1 = "8bc9ce4233be3c63f8dcd78ccaf1b63a9c0baa34" +git-tree-sha1 = "53046f0483375e3ed78e49190f1154fa0a4083a1" uuid = "5da4648a-3479-48b8-97b9-01cb529c0a1f" -version = "0.3.3" +version = "0.3.4" [[deps.NVTX_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1381,9 +1545,9 @@ version = "0.1.5" [[deps.NearestNeighbors]] deps = ["Distances", "StaticArrays"] -git-tree-sha1 = "2c3726ceb3388917602169bed973dbc97f1b51a8" +git-tree-sha1 = "ded64ff6d4fdd1cb68dfcbb818c69e144a5b2e4c" uuid = "b8a86587-4115-5ab1-83bc-aa920d37bbce" -version = "0.4.13" +version = "0.4.16" [[deps.Netpbm]] deps = ["FileIO", "ImageCore", "ImageMetadata"] @@ -1396,10 +1560,13 @@ uuid = "ca575930-c2e3-43a9-ace4-1e988b2c1908" version = "1.2.0" [[deps.OffsetArrays]] -deps = ["Adapt"] -git-tree-sha1 = "2ac17d29c523ce1cd38e27785a7d23024853a4bb" +git-tree-sha1 = "e64b4f5ea6b7389f6f046d13d4896a8f9c1ba71e" uuid = "6fe1bfb0-de20-5000-8ca7-80f57d26f881" -version = "1.12.10" +version = "1.14.0" +weakdeps = ["Adapt"] + + [deps.OffsetArrays.extensions] + OffsetArraysAdaptExt = "Adapt" [[deps.Ogg_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1409,14 +1576,14 @@ version = "1.3.5+1" [[deps.OneHotArrays]] deps = ["Adapt", "ChainRulesCore", "Compat", "GPUArraysCore", "LinearAlgebra", "NNlib"] -git-tree-sha1 = "5e4029759e8699ec12ebdf8721e51a659443403c" +git-tree-sha1 = "963a3f28a2e65bb87a68033ea4a616002406037d" uuid = "0b1bfda6-eb8a-41d2-88d8-f5af5cad476f" -version = "0.2.4" +version = "0.2.5" [[deps.OpenBLAS_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "Libdl"] uuid = "4536629a-c528-5b80-bd46-f80d51c5b363" -version = "0.3.21+4" +version = "0.3.23+4" [[deps.OpenEXR]] deps = ["Colors", "FileIO", "OpenEXR_jll"] @@ -1426,26 +1593,44 @@ version = "0.3.2" [[deps.OpenEXR_jll]] deps = ["Artifacts", "Imath_jll", "JLLWrappers", "Libdl", "Zlib_jll"] -git-tree-sha1 = "a4ca623df1ae99d09bc9868b008262d0c0ac1e4f" +git-tree-sha1 = "8292dd5c8a38257111ada2174000a33745b06d4e" uuid = "18a262bb-aa17-5467-a713-aee519bc75cb" -version = "3.1.4+0" +version = "3.2.4+0" + +[[deps.OpenJpeg_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Libtiff_jll", "LittleCMS_jll", "libpng_jll"] +git-tree-sha1 = "8d4c87ffaf09dbdd82bcf8c939843e94dd424df2" +uuid = "643b3616-a352-519d-856d-80112ee9badc" +version = "2.5.0+0" [[deps.OpenLibm_jll]] deps = ["Artifacts", "Libdl"] uuid = "05823500-19ac-5b8b-9628-191a04bc5112" -version = "0.8.1+0" +version = "0.8.1+2" + +[[deps.OpenML]] +deps = ["ARFFFiles", "HTTP", "JSON", "Markdown", "Pkg", "Scratch"] +git-tree-sha1 = "6efb039ae888699d5a74fb593f6f3e10c7193e33" +uuid = "8b6db2d4-7670-4922-a472-f9537c81ab66" +version = "0.3.1" + +[[deps.OpenMPI_jll]] +deps = ["Artifacts", "CompilerSupportLibraries_jll", "Hwloc_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "PMIx_jll", "TOML", "Zlib_jll", "libevent_jll", "prrte_jll"] +git-tree-sha1 = "f46caf663e069027a06942d00dced37f1eb3d8ad" +uuid = "fe0851c0-eecd-5654-98d4-656369965a5c" +version = "5.0.2+0" [[deps.OpenSSL]] deps = ["BitFlags", "Dates", "MozillaCACerts_jll", "OpenSSL_jll", "Sockets"] -git-tree-sha1 = "51901a49222b09e3743c65b8847687ae5fc78eb2" +git-tree-sha1 = "38cb508d080d21dc1128f7fb04f20387ed4c0af4" uuid = "4d8831e6-92b7-49fb-bdf8-b643e874388c" -version = "1.4.1" +version = "1.4.3" [[deps.OpenSSL_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "a12e56c72edee3ce6b96667745e6cbbe5498f200" +git-tree-sha1 = "3da7367955dcc5c54c1ba4d402ccdc09a1a3e046" uuid = "458c3c95-2e84-50aa-8efc-19380b2a3a95" -version = "1.1.23+0" +version = "3.0.13+1" [[deps.OpenSpecFun_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "Libdl", "Pkg"] @@ -1455,9 +1640,9 @@ version = "0.5.5+0" [[deps.Optimisers]] deps = ["ChainRulesCore", "Functors", "LinearAlgebra", "Random", "Statistics"] -git-tree-sha1 = "34205b1204cc83c43cd9cfe53ffbd3b310f6e8c5" +git-tree-sha1 = "6572fe0c5b74431aaeb0b18a4aa5ef03c84678be" uuid = "3bd65402-5787-11e9-1adc-39752487f4e2" -version = "0.3.1" +version = "0.3.3" [[deps.Opus_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1473,13 +1658,25 @@ version = "1.6.3" [[deps.PCRE2_jll]] deps = ["Artifacts", "Libdl"] uuid = "efcefdf7-47ab-520b-bdef-62a2eaa19f15" -version = "10.42.0+0" +version = "10.42.0+1" + +[[deps.PDMats]] +deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse"] +git-tree-sha1 = "949347156c25054de2db3b166c52ac4728cbad65" +uuid = "90014a1f-27ba-587c-ab20-58faa44d9150" +version = "0.11.31" + +[[deps.PMIx_jll]] +deps = ["Artifacts", "Hwloc_jll", "JLLWrappers", "Libdl", "Zlib_jll", "libevent_jll"] +git-tree-sha1 = "360f48126b5f2c2f0c833be960097f7c62705976" +uuid = "32165bc3-0280-59bc-8c0b-c33b6203efab" +version = "4.2.9+0" [[deps.PNGFiles]] deps = ["Base64", "CEnum", "ImageCore", "IndirectArrays", "OffsetArrays", "libpng_jll"] -git-tree-sha1 = "eed372b0fa15624273a9cdb188b1b88476e6a233" +git-tree-sha1 = "67186a2bc9a90f9f85ff3cc8277868961fb57cbd" uuid = "f57f5aa1-a3ce-4bc8-8ab9-96f992907883" -version = "0.4.2" +version = "0.4.3" [[deps.PaddedViews]] deps = ["OffsetArrays"] @@ -1495,21 +1692,9 @@ version = "0.12.3" [[deps.Parsers]] deps = ["Dates", "PrecompileTools", "UUIDs"] -git-tree-sha1 = "a935806434c9d4c506ba941871b327b96d41f2bf" +git-tree-sha1 = "8489905bcdbcfac64d1daa51ca07c0d8f0283821" uuid = "69de0a69-1ddd-5017-9359-2bf0b02dc9f0" -version = "2.8.0" - -[[deps.PeriodicTable]] -deps = ["Base64", "Test", "Unitful"] -git-tree-sha1 = "9a9731f346797126271405971dfdf4709947718b" -uuid = "7b2266bf-644c-5ea3-82d8-af4bbd25a884" -version = "1.1.4" - -[[deps.Pickle]] -deps = ["BFloat16s", "DataStructures", "InternedStrings", "Serialization", "SparseArrays", "Strided", "StringEncodings", "ZipFile"] -git-tree-sha1 = "2e71d7dbcab8dc47306c0ed6ac6018fbc1a7070f" -uuid = "fbb45041-c46e-462f-888f-7c521cafbc2c" -version = "0.3.3" +version = "2.8.1" [[deps.Pipe]] git-tree-sha1 = "6842804e7867b115ca9de748a0cf6b364523c16d" @@ -1525,7 +1710,7 @@ version = "0.42.2+0" [[deps.Pkg]] deps = ["Artifacts", "Dates", "Downloads", "FileWatching", "LibGit2", "Libdl", "Logging", "Markdown", "Printf", "REPL", "Random", "SHA", "Serialization", "TOML", "Tar", "UUIDs", "p7zip_jll"] uuid = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f" -version = "1.9.2" +version = "1.10.0" [[deps.PkgVersion]] deps = ["Pkg"] @@ -1541,15 +1726,15 @@ version = "3.1.0" [[deps.PlotUtils]] deps = ["ColorSchemes", "Colors", "Dates", "PrecompileTools", "Printf", "Random", "Reexport", "Statistics"] -git-tree-sha1 = "f92e1315dadf8c46561fb9396e525f7200cdc227" +git-tree-sha1 = "7b1a9df27f072ac4c9c7cbe5efb198489258d1f5" uuid = "995b91a9-d308-5afd-9ec6-746e21dbc043" -version = "1.3.5" +version = "1.4.1" [[deps.Plots]] -deps = ["Base64", "Contour", "Dates", "Downloads", "FFMPEG", "FixedPointNumbers", "GR", "JLFzf", "JSON", "LaTeXStrings", "Latexify", "LinearAlgebra", "Measures", "NaNMath", "Pkg", "PlotThemes", "PlotUtils", "PrecompileTools", "Preferences", "Printf", "REPL", "Random", "RecipesBase", "RecipesPipeline", "Reexport", "RelocatableFolders", "Requires", "Scratch", "Showoff", "SparseArrays", "Statistics", "StatsBase", "UUIDs", "UnicodeFun", "UnitfulLatexify", "Unzip"] -git-tree-sha1 = "ccee59c6e48e6f2edf8a5b64dc817b6729f99eb5" +deps = ["Base64", "Contour", "Dates", "Downloads", "FFMPEG", "FixedPointNumbers", "GR", "JLFzf", "JSON", "LaTeXStrings", "Latexify", "LinearAlgebra", "Measures", "NaNMath", "Pkg", "PlotThemes", "PlotUtils", "PrecompileTools", "Printf", "REPL", "Random", "RecipesBase", "RecipesPipeline", "Reexport", "RelocatableFolders", "Requires", "Scratch", "Showoff", "SparseArrays", "Statistics", "StatsBase", "UUIDs", "UnicodeFun", "UnitfulLatexify", "Unzip"] +git-tree-sha1 = "442e1e7ac27dd5ff8825c3fa62fbd1e86397974b" uuid = "91a5bcdd-55d7-5caf-9e0b-520d859cae80" -version = "1.39.0" +version = "1.40.4" [deps.Plots.extensions] FileIOExt = "FileIO" @@ -1567,9 +1752,9 @@ version = "1.39.0" [[deps.Polynomials]] deps = ["LinearAlgebra", "RecipesBase", "Setfield", "SparseArrays"] -git-tree-sha1 = "a9c7a523d5ed375be3983db190f6a5874ae9286d" +git-tree-sha1 = "89620a0b5458dca4bf9ea96174fa6422b3adf6f9" uuid = "f27b6e38-b328-58d1-80ce-0feddd5e7a45" -version = "4.0.6" +version = "4.0.8" [deps.Polynomials.extensions] PolynomialsChainRulesCoreExt = "ChainRulesCore" @@ -1591,21 +1776,26 @@ version = "1.4.3" [[deps.PrecompileTools]] deps = ["Preferences"] -git-tree-sha1 = "03b4c25b43cb84cee5c90aa9b5ea0a78fd848d2f" +git-tree-sha1 = "5aa36f7049a63a1528fe8f7c3f2113413ffd4e1f" uuid = "aea7be01-6a6a-4083-8856-8a6e6704d82a" -version = "1.2.0" +version = "1.2.1" [[deps.Preferences]] deps = ["TOML"] -git-tree-sha1 = "00805cd429dcb4870060ff49ef443486c262e38e" +git-tree-sha1 = "9306f6085165d270f7e3db02af26a400d580f5c6" uuid = "21216c6a-2e73-6563-6e65-726566657250" -version = "1.4.1" +version = "1.4.3" [[deps.PrettyPrint]] git-tree-sha1 = "632eb4abab3449ab30c5e1afaa874f0b98b586e4" uuid = "8162dcfd-2161-5ef2-ae6c-7681170c5f98" version = "0.2.0" +[[deps.PrettyPrinting]] +git-tree-sha1 = "142ee93724a9c5d04d78df7006670a93ed1b244e" +uuid = "54e16d92-306c-5ea0-a30b-337be88ac337" +version = "0.4.2" + [[deps.PrettyTables]] deps = ["Crayons", "LaTeXStrings", "Markdown", "PrecompileTools", "Printf", "Reexport", "StringManipulation", "Tables"] git-tree-sha1 = "88b895d13d53b5577fd53379d913b9ab9ac82660" @@ -1614,9 +1804,9 @@ version = "2.3.1" [[deps.Primes]] deps = ["IntegerMathUtils"] -git-tree-sha1 = "1d05623b5952aed1307bf8b43bec8b8d1ef94b6e" +git-tree-sha1 = "cb420f77dc474d23ee47ca8d14c90810cafe69e7" uuid = "27ebfcd6-29c5-5fa9-bf4b-fb8fc14df3ae" -version = "0.5.5" +version = "0.5.6" [[deps.Printf]] deps = ["Unicode"] @@ -1630,15 +1820,15 @@ version = "0.1.4" [[deps.ProgressMeter]] deps = ["Distributed", "Printf"] -git-tree-sha1 = "00099623ffee15972c16111bcf84c58a0051257c" +git-tree-sha1 = "763a8ceb07833dd51bb9e3bbca372de32c0605ad" uuid = "92933f4c-e287-5a05-a399-4b506db050ca" -version = "1.9.0" +version = "1.10.0" [[deps.PyCall]] deps = ["Conda", "Dates", "Libdl", "LinearAlgebra", "MacroTools", "Serialization", "VersionParsing"] -git-tree-sha1 = "1cb97fa63a3629c6d892af4f76fcc4ad8191837c" +git-tree-sha1 = "9816a3826b0ebf49ab4926e2b18842ad8b5c8f04" uuid = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0" -version = "1.96.2" +version = "1.96.4" [[deps.PyPlot]] deps = ["Colors", "LaTeXStrings", "PyCall", "Sockets", "Test", "VersionParsing"] @@ -1652,31 +1842,37 @@ git-tree-sha1 = "18e8f4d1426e965c7b532ddd260599e1510d26ce" uuid = "4b34888f-f399-49d4-9bb3-47ed5cae4e65" version = "1.0.0" -[[deps.Qt5Base_jll]] -deps = ["Artifacts", "CompilerSupportLibraries_jll", "Fontconfig_jll", "Glib_jll", "JLLWrappers", "Libdl", "Libglvnd_jll", "OpenSSL_jll", "Pkg", "Xorg_libXext_jll", "Xorg_libxcb_jll", "Xorg_xcb_util_image_jll", "Xorg_xcb_util_keysyms_jll", "Xorg_xcb_util_renderutil_jll", "Xorg_xcb_util_wm_jll", "Zlib_jll", "xkbcommon_jll"] -git-tree-sha1 = "0c03844e2231e12fda4d0086fd7cbe4098ee8dc5" -uuid = "ea2cea3b-5b76-57ae-a6ef-0a8af62496e1" -version = "5.15.3+2" +[[deps.Qt6Base_jll]] +deps = ["Artifacts", "CompilerSupportLibraries_jll", "Fontconfig_jll", "Glib_jll", "JLLWrappers", "Libdl", "Libglvnd_jll", "OpenSSL_jll", "Vulkan_Loader_jll", "Xorg_libSM_jll", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Xorg_libxcb_jll", "Xorg_xcb_util_cursor_jll", "Xorg_xcb_util_image_jll", "Xorg_xcb_util_keysyms_jll", "Xorg_xcb_util_renderutil_jll", "Xorg_xcb_util_wm_jll", "Zlib_jll", "libinput_jll", "xkbcommon_jll"] +git-tree-sha1 = "37b7bb7aabf9a085e0044307e1717436117f2b3b" +uuid = "c0090381-4147-56d7-9ebc-da0b1113ec56" +version = "6.5.3+1" + +[[deps.QuadGK]] +deps = ["DataStructures", "LinearAlgebra"] +git-tree-sha1 = "9b23c31e76e333e6fb4c1595ae6afa74966a729e" +uuid = "1fd47b50-473d-5c70-9696-f719f8f3bcdc" +version = "2.9.4" [[deps.Quaternions]] deps = ["LinearAlgebra", "Random", "RealDot"] -git-tree-sha1 = "9a46862d248ea548e340e30e2894118749dc7f51" +git-tree-sha1 = "994cc27cdacca10e68feb291673ec3a76aa2fae9" uuid = "94ee1d12-ae83-5a48-8b1c-48b8ff168ae0" -version = "0.7.5" +version = "0.7.6" [[deps.REPL]] deps = ["InteractiveUtils", "Markdown", "Sockets", "Unicode"] uuid = "3fa0cd96-eef1-5676-8a61-b3b8758bbffb" [[deps.Random]] -deps = ["SHA", "Serialization"] +deps = ["SHA"] uuid = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c" [[deps.Random123]] deps = ["Random", "RandomNumbers"] -git-tree-sha1 = "552f30e847641591ba3f39fd1bed559b9deb0ef3" +git-tree-sha1 = "4743b43e5a9c4a2ede372de7061eed81795b12e7" uuid = "74087812-796a-5b5d-8853-05524746bad3" -version = "1.6.1" +version = "1.7.0" [[deps.RandomNumbers]] deps = ["Random", "Requires"] @@ -1734,6 +1930,12 @@ git-tree-sha1 = "ffd19052caf598b8653b99404058fce14828be51" uuid = "2792f1a3-b283-48e8-9a74-f99dce5104f3" version = "0.1.0" +[[deps.RegistryTools]] +deps = ["AutoHashEquals", "LibGit2", "Pkg", "SHA", "UUIDs"] +git-tree-sha1 = "3dd9eaa965a2925b0a34d994b4d886d797f54b20" +uuid = "d1eb7eb1-105f-429d-abf5-b0f65cb9e2c4" +version = "2.2.3" + [[deps.RelocatableFolders]] deps = ["SHA", "Scratch"] git-tree-sha1 = "ffdaf70d81cf6ff22c2b6e733c900c3321cab864" @@ -1746,21 +1948,42 @@ git-tree-sha1 = "838a3a4188e2ded87a4f9f184b4b0d78a1e91cb7" uuid = "ae029012-a4dd-5104-9daa-d747884805df" version = "1.3.0" +[[deps.Rmath]] +deps = ["Random", "Rmath_jll"] +git-tree-sha1 = "f65dcb5fa46aee0cf9ed6274ccbd597adc49aa7b" +uuid = "79098fc4-a85e-5d69-aa6a-4863f24498fa" +version = "0.7.1" + +[[deps.Rmath_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] +git-tree-sha1 = "6ed52fdd3382cf21947b15e8870ac0ddbff736da" +uuid = "f50d1b31-88e8-58de-be2c-1cc44531875f" +version = "0.4.0+0" + [[deps.Rotations]] deps = ["LinearAlgebra", "Quaternions", "Random", "StaticArrays"] -git-tree-sha1 = "792d8fd4ad770b6d517a13ebb8dadfcac79405b8" +git-tree-sha1 = "2a0a5d8569f481ff8840e3b7c84bbf188db6a3fe" uuid = "6038ab10-8711-5258-84ad-4b1120ba62dc" -version = "1.6.1" +version = "1.7.0" +weakdeps = ["RecipesBase"] + + [deps.Rotations.extensions] + RotationsRecipesBaseExt = "RecipesBase" [[deps.SHA]] uuid = "ea8e919c-243c-51af-8825-aaa63cd721ce" version = "0.7.0" -[[deps.ScatteringTransform]] -deps = ["AbstractFFTs", "Adapt", "CUDA", "ChainRules", "ChainRulesCore", "ContinuousWavelets", "DSP", "Dates", "Distributed", "DistributedArrays", "FFTW", "Flux", "FourierFilterFlux", "HDF5", "Interpolations", "JLD", "JLD2", "LaTeXStrings", "LinearAlgebra", "MonogenicFilterFlux", "NNlib", "Plots", "Random", "RecipesBase", "Reexport", "SharedArrays", "SpecialFunctions", "Statistics", "Wavelets", "Zygote", "cuDNN"] -path = "/home/dsweber/.julia/dev/ScatteringTransform" -uuid = "eadaac29-8b6b-5395-80fd-9ce36bb46293" -version = "0.6.2" +[[deps.ScientificTypes]] +deps = ["CategoricalArrays", "ColorTypes", "Dates", "Distributions", "PrettyTables", "Reexport", "ScientificTypesBase", "StatisticalTraits", "Tables"] +git-tree-sha1 = "75ccd10ca65b939dab03b812994e571bf1e3e1da" +uuid = "321657f4-b219-11e9-178b-2701a2544e81" +version = "3.0.2" + +[[deps.ScientificTypesBase]] +git-tree-sha1 = "a8e18eb383b5ecf1b5e6fc237eb39255044fd92b" +uuid = "30f210dd-8aff-4c5f-94ba-8e64358c1161" +version = "3.0.0" [[deps.Scratch]] deps = ["Dates"] @@ -1826,19 +2049,25 @@ uuid = "6462fe0b-24de-5631-8697-dd941f90decc" [[deps.SortingAlgorithms]] deps = ["DataStructures"] -git-tree-sha1 = "5165dfb9fd131cf0c6957a3a7605dede376e7b63" +git-tree-sha1 = "66e0a8e672a0bdfca2c3f5937efb8538b9ddc085" uuid = "a2af1166-a08f-5f64-846c-94a0d3cef48c" -version = "1.2.0" +version = "1.2.1" [[deps.SparseArrays]] deps = ["Libdl", "LinearAlgebra", "Random", "Serialization", "SuiteSparse_jll"] uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" +version = "1.10.0" [[deps.SparseInverseSubset]] deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse"] -git-tree-sha1 = "91402087fd5d13b2d97e3ef29bbdf9d7859e678a" +git-tree-sha1 = "52962839426b75b3021296f7df242e40ecfc0852" uuid = "dc90abb0-5640-4711-901d-7e5b23a2fada" -version = "0.1.1" +version = "0.1.2" + +[[deps.SpatialIndexing]] +git-tree-sha1 = "84efe17c77e1f2156a7a0d8a7c163c1e1c7bdaed" +uuid = "d4ead438-fe20-5cc5-a293-4fd39a41b74c" +version = "0.1.6" [[deps.SpecialFunctions]] deps = ["IrrationalConstants", "LogExpFunctions", "OpenLibm_jll", "OpenSpecFun_jll"] @@ -1856,6 +2085,12 @@ git-tree-sha1 = "e08a62abc517eb79667d0a29dc08a3b589516bb5" uuid = "171d559e-b47b-412a-8079-5efa626c420e" version = "0.1.15" +[[deps.StableRNGs]] +deps = ["Random"] +git-tree-sha1 = "83e6cce8324d49dfaf9ef059227f91ed4441a8e5" +uuid = "860ef19b-820b-49d6-a774-d7a799459cd3" +version = "1.0.2" + [[deps.StackViews]] deps = ["OffsetArrays"] git-tree-sha1 = "46e589465204cd0c08b4bd97385e4fa79a0c770c" @@ -1864,12 +2099,13 @@ version = "0.1.1" [[deps.StaticArrays]] deps = ["LinearAlgebra", "PrecompileTools", "Random", "StaticArraysCore"] -git-tree-sha1 = "5ef59aea6f18c25168842bded46b16662141ab87" +git-tree-sha1 = "bf074c045d3d5ffd956fa0a461da38a44685d6b2" uuid = "90137ffa-7385-5640-81b9-e52037218182" -version = "1.7.0" -weakdeps = ["Statistics"] +version = "1.9.3" +weakdeps = ["ChainRulesCore", "Statistics"] [deps.StaticArrays.extensions] + StaticArraysChainRulesCoreExt = "ChainRulesCore" StaticArraysStatisticsExt = "Statistics" [[deps.StaticArraysCore]] @@ -1877,10 +2113,36 @@ git-tree-sha1 = "36b3d696ce6366023a0ea192b4cd442268995a0d" uuid = "1e83bf80-4336-4d27-bf5d-d5a4f845583c" version = "1.4.2" +[[deps.StatisticalMeasures]] +deps = ["CategoricalArrays", "CategoricalDistributions", "Distributions", "LearnAPI", "LinearAlgebra", "MacroTools", "OrderedCollections", "PrecompileTools", "ScientificTypesBase", "StatisticalMeasuresBase", "Statistics", "StatsBase"] +git-tree-sha1 = "8b5a165b0ee2b361d692636bfb423b19abfd92b3" +uuid = "a19d573c-0a75-4610-95b3-7071388c7541" +version = "0.1.6" + + [deps.StatisticalMeasures.extensions] + LossFunctionsExt = "LossFunctions" + ScientificTypesExt = "ScientificTypes" + + [deps.StatisticalMeasures.weakdeps] + LossFunctions = "30fc2ffe-d236-52d8-8643-a9d8f7c094a7" + ScientificTypes = "321657f4-b219-11e9-178b-2701a2544e81" + +[[deps.StatisticalMeasuresBase]] +deps = ["CategoricalArrays", "InteractiveUtils", "MLUtils", "MacroTools", "OrderedCollections", "PrecompileTools", "ScientificTypesBase", "Statistics"] +git-tree-sha1 = "17dfb22e2e4ccc9cd59b487dce52883e0151b4d3" +uuid = "c062fc1d-0d66-479b-b6ac-8b44719de4cc" +version = "0.1.1" + +[[deps.StatisticalTraits]] +deps = ["ScientificTypesBase"] +git-tree-sha1 = "30b9236691858e13f167ce829490a68e1a597782" +uuid = "64bff920-2084-43da-a3e6-9bb72801c0c9" +version = "3.2.0" + [[deps.Statistics]] deps = ["LinearAlgebra", "SparseArrays"] uuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2" -version = "1.9.0" +version = "1.10.0" [[deps.StatsAPI]] deps = ["LinearAlgebra"] @@ -1890,21 +2152,23 @@ version = "1.7.0" [[deps.StatsBase]] deps = ["DataAPI", "DataStructures", "LinearAlgebra", "LogExpFunctions", "Missings", "Printf", "Random", "SortingAlgorithms", "SparseArrays", "Statistics", "StatsAPI"] -git-tree-sha1 = "1d77abd07f617c4868c33d4f5b9e1dbb2643c9cf" +git-tree-sha1 = "d1bf48bfcc554a3761a133fe3a9bb01488e06916" uuid = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91" -version = "0.34.2" - -[[deps.Strided]] -deps = ["LinearAlgebra", "TupleTools"] -git-tree-sha1 = "a7a664c91104329c88222aa20264e1a05b6ad138" -uuid = "5e0ebb24-38b0-5f93-81fe-25c709ecae67" -version = "1.2.3" - -[[deps.StringEncodings]] -deps = ["Libiconv_jll"] -git-tree-sha1 = "b765e46ba27ecf6b44faf70df40c57aa3a547dcb" -uuid = "69024149-9ee7-55f6-a4c4-859efe599b68" -version = "0.3.7" +version = "0.33.21" + +[[deps.StatsFuns]] +deps = ["HypergeometricFunctions", "IrrationalConstants", "LogExpFunctions", "Reexport", "Rmath", "SpecialFunctions"] +git-tree-sha1 = "cef0472124fab0695b58ca35a77c6fb942fdab8a" +uuid = "4c63d2b9-4356-54db-8cca-17b64c39e42c" +version = "1.3.1" + + [deps.StatsFuns.extensions] + StatsFunsChainRulesCoreExt = "ChainRulesCore" + StatsFunsInverseFunctionsExt = "InverseFunctions" + + [deps.StatsFuns.weakdeps] + ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" + InverseFunctions = "3587e190-3f89-42d0-90ee-14403ec27112" [[deps.StringManipulation]] deps = ["PrecompileTools"] @@ -1913,25 +2177,26 @@ uuid = "892a3eda-7b42-436c-8928-eab12a02cf0e" version = "0.3.4" [[deps.StructArrays]] -deps = ["Adapt", "ConstructionBase", "DataAPI", "GPUArraysCore", "StaticArraysCore", "Tables"] -git-tree-sha1 = "0a3db38e4cce3c54fe7a71f831cd7b6194a54213" +deps = ["ConstructionBase", "DataAPI", "Tables"] +git-tree-sha1 = "f4dc295e983502292c4c3f951dbb4e985e35b3be" uuid = "09ab397b-f2b6-538f-b94a-2f83cf4a842a" -version = "0.6.16" +version = "0.6.18" +weakdeps = ["Adapt", "GPUArraysCore", "SparseArrays", "StaticArrays"] -[[deps.StructTypes]] -deps = ["Dates", "UUIDs"] -git-tree-sha1 = "ca4bccb03acf9faaf4137a9abc1881ed1841aa70" -uuid = "856f2bd8-1eba-4b0a-8007-ebc267875bd4" -version = "1.10.0" + [deps.StructArrays.extensions] + StructArraysAdaptExt = "Adapt" + StructArraysGPUArraysCoreExt = "GPUArraysCore" + StructArraysSparseArraysExt = "SparseArrays" + StructArraysStaticArraysExt = "StaticArrays" [[deps.SuiteSparse]] deps = ["Libdl", "LinearAlgebra", "Serialization", "SparseArrays"] uuid = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9" [[deps.SuiteSparse_jll]] -deps = ["Artifacts", "Libdl", "Pkg", "libblastrampoline_jll"] +deps = ["Artifacts", "Libdl", "libblastrampoline_jll"] uuid = "bea87d4a-7f5b-5778-9afe-8cc45184846c" -version = "5.10.1+6" +version = "7.2.1+1" [[deps.TOML]] deps = ["Dates"] @@ -1984,9 +2249,9 @@ uuid = "a759f4b9-e2f1-59dc-863e-4aeb61b1ea8f" version = "0.5.23" [[deps.TranscodingStreams]] -git-tree-sha1 = "1fbeaaca45801b4ba17c251dd8603ef24801dd84" +git-tree-sha1 = "71509f04d045ec714c4748c785a59045c3736349" uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa" -version = "0.10.2" +version = "0.10.7" weakdeps = ["Random", "Test"] [deps.TranscodingStreams.extensions] @@ -1994,9 +2259,9 @@ weakdeps = ["Random", "Test"] [[deps.Transducers]] deps = ["Adapt", "ArgCheck", "BangBang", "Baselet", "CompositionsBase", "ConstructionBase", "DefineSingletons", "Distributed", "InitialValues", "Logging", "Markdown", "MicroCollections", "Requires", "Setfield", "SplittablesBase", "Tables"] -git-tree-sha1 = "e579d3c991938fecbb225699e8f611fa3fbf2141" +git-tree-sha1 = "3064e780dbb8a9296ebb3af8f440f787bb5332af" uuid = "28d57a85-8fef-5791-bfe6-a80928e7c999" -version = "0.4.79" +version = "0.4.80" [deps.Transducers.extensions] TransducersBlockArraysExt = "BlockArrays" @@ -2012,11 +2277,6 @@ version = "0.4.79" OnlineStatsBase = "925886fa-5bf2-5e8e-b522-a9147a512338" Referenceables = "42d2dcc6-99eb-4e98-b66c-637b7d73030e" -[[deps.TupleTools]] -git-tree-sha1 = "155515ed4c4236db30049ac1495e2969cc06be9d" -uuid = "9d95972d-f1c8-5527-a6e0-b4b365fa01f6" -version = "1.4.3" - [[deps.URIs]] git-tree-sha1 = "67db6cc7b3821e19ebe75791a9dd19c9b1188f2b" uuid = "5c2747f8-b7ea-4ff2-ba2e-563bfd36b1d4" @@ -2054,12 +2314,6 @@ version = "1.19.0" ConstructionBase = "187b0558-2788-49d3-abe0-74a17ed4e7c9" InverseFunctions = "3587e190-3f89-42d0-90ee-14403ec27112" -[[deps.UnitfulAtomic]] -deps = ["Unitful"] -git-tree-sha1 = "903be579194534af1c4b4778d1ace676ca042238" -uuid = "a7773ee8-282e-5fa2-be4e-bd808c38a91a" -version = "1.0.0" - [[deps.UnitfulLatexify]] deps = ["LaTeXStrings", "Latexify", "Unitful"] git-tree-sha1 = "e2d817cc500e960fdbafcf988ac8436ba3208bfd" @@ -2087,6 +2341,12 @@ git-tree-sha1 = "58d6e80b4ee071f5efd07fda82cb9fbe17200868" uuid = "81def892-9a0e-5fdd-b105-ffc91e053289" version = "1.3.0" +[[deps.Vulkan_Loader_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Wayland_jll", "Xorg_libX11_jll", "Xorg_libXrandr_jll", "xkbcommon_jll"] +git-tree-sha1 = "2f0486047a07670caad3a81a075d2e518acc5c59" +uuid = "a44049a8-05dd-5a78-86c9-5fde0876e88c" +version = "1.3.243+0" + [[deps.Wavelets]] deps = ["DSP", "FFTW", "LinearAlgebra", "Reexport", "SpecialFunctions", "Statistics"] git-tree-sha1 = "f514f9b16f6a15552c6aad7b03afc7b9a8478ef4" @@ -2101,15 +2361,9 @@ version = "1.21.0+1" [[deps.Wayland_protocols_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "4528479aa01ee1b3b4cd0e6faef0e04cf16466da" +git-tree-sha1 = "93f43ab61b16ddfb2fd3bb13b3ce241cafb0e6c9" uuid = "2381bf8a-dfd0-557d-9999-79630e7b1b91" -version = "1.25.0+0" - -[[deps.WeakRefStrings]] -deps = ["DataAPI", "InlineStrings", "Parsers"] -git-tree-sha1 = "b1be2855ed9ed8eac54e5caff2afcdb442d52c23" -uuid = "ea10d353-3f73-51f8-a26c-33c1cb351aa5" -version = "1.4.2" +version = "1.31.0+0" [[deps.WoodburyMatrices]] deps = ["LinearAlgebra", "SparseArrays"] @@ -2117,16 +2371,11 @@ git-tree-sha1 = "5f24e158cf4cee437052371455fe361f526da062" uuid = "efce3f68-66dc-5838-9240-27a6d6f5f9b6" version = "0.5.6" -[[deps.WorkerUtilities]] -git-tree-sha1 = "cd1659ba0d57b71a464a29e64dbc67cfe83d54e7" -uuid = "76eceee3-57b5-4d4a-8e66-0e911cebbf60" -version = "1.6.1" - [[deps.XML2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libiconv_jll", "Zlib_jll"] -git-tree-sha1 = "da69178aacc095066bad1f69d2f59a60a1dd8ad1" +git-tree-sha1 = "532e22cf7be8462035d092ff21fada7527e2c488" uuid = "02c8fc9c-b97f-50b9-bbe4-9be30ff0a78a" -version = "2.12.0+0" +version = "2.12.6+0" [[deps.XSLT_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgcrypt_jll", "Libgpg_error_jll", "Libiconv_jll", "Pkg", "XML2_jll", "Zlib_jll"] @@ -2134,6 +2383,24 @@ git-tree-sha1 = "91844873c4085240b95e795f692c4cec4d805f8a" uuid = "aed1982a-8fda-507f-9586-7b0439959a61" version = "1.1.34+0" +[[deps.XZ_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "ac88fb95ae6447c8dda6a5503f3bafd496ae8632" +uuid = "ffd25f8a-64ca-5728-b0f7-c24cf3aae800" +version = "5.4.6+0" + +[[deps.Xorg_libICE_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "326b4fea307b0b39892b3e85fa451692eda8d46c" +uuid = "f67eecfb-183a-506d-b269-f58e52b52d7c" +version = "1.1.1+0" + +[[deps.Xorg_libSM_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libICE_jll"] +git-tree-sha1 = "3796722887072218eabafb494a13c963209754ce" +uuid = "c834827a-8449-5923-a945-d239c165b7dd" +version = "1.2.4+0" + [[deps.Xorg_libX11_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libxcb_jll", "Xorg_xtrans_jll"] git-tree-sha1 = "afead5aba5aa507ad5a3bf01f58f82c8d1403495" @@ -2159,10 +2426,10 @@ uuid = "a3789734-cfe1-5b06-b2d0-1dd0d9d62d05" version = "1.1.4+0" [[deps.Xorg_libXext_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_libX11_jll"] -git-tree-sha1 = "b7c0aa8c376b31e4852b360222848637f481f8c3" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libX11_jll"] +git-tree-sha1 = "d2d1a5c49fae4ba39983f63de6afcbea47194e85" uuid = "1082639a-0dae-5f34-9b06-72781eeb8cb3" -version = "1.3.4+4" +version = "1.3.6+0" [[deps.Xorg_libXfixes_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_libX11_jll"] @@ -2189,10 +2456,10 @@ uuid = "ec84b674-ba8e-5d96-8ba1-2a689ba10484" version = "1.5.2+4" [[deps.Xorg_libXrender_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_libX11_jll"] -git-tree-sha1 = "19560f30fd49f4d4efbe7002a1037f8c43d43b96" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libX11_jll"] +git-tree-sha1 = "47e45cd78224c53109495b3e324df0c37bb61fbe" uuid = "ea2f1a96-1ddc-540d-b46f-429655e07cfa" -version = "0.9.10+4" +version = "0.9.11+0" [[deps.Xorg_libpthread_stubs_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -2212,6 +2479,12 @@ git-tree-sha1 = "730eeca102434283c50ccf7d1ecdadf521a765a4" uuid = "cc61e674-0454-545c-8b26-ed2c68acab7a" version = "1.1.2+0" +[[deps.Xorg_xcb_util_cursor_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_xcb_util_image_jll", "Xorg_xcb_util_jll", "Xorg_xcb_util_renderutil_jll"] +git-tree-sha1 = "04341cb870f29dcd5e39055f895c39d016e18ccd" +uuid = "e920d4aa-a673-5f3a-b3d7-f755a4d47c43" +version = "0.1.4+0" + [[deps.Xorg_xcb_util_image_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_xcb_util_jll"] git-tree-sha1 = "0fab0a40349ba1cba2c1da699243396ff8e94b97" @@ -2260,30 +2533,22 @@ git-tree-sha1 = "e92a1a012a10506618f10b7047e478403a046c77" uuid = "c5fb5394-a638-5e4d-96e5-b29de1b5cf10" version = "1.5.0+0" -[[deps.ZipFile]] -deps = ["Libdl", "Printf", "Zlib_jll"] -git-tree-sha1 = "f492b7fe1698e623024e873244f10d89c95c340a" -uuid = "a5390f91-8eb1-5f08-bee0-b1d1ffed6cea" -version = "0.10.1" - [[deps.Zlib_jll]] deps = ["Libdl"] uuid = "83775a58-1f1d-513f-b197-d71354ab007a" -version = "1.2.13+0" +version = "1.2.13+1" [[deps.Zstd_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "49ce682769cd5de6c72dcf1b94ed7790cd08974c" +git-tree-sha1 = "e678132f07ddb5bfa46857f0d7620fb9be675d3b" uuid = "3161d3a3-bdf6-5164-811a-617609db77b4" -version = "1.5.5+0" +version = "1.5.6+0" [[deps.Zygote]] deps = ["AbstractFFTs", "ChainRules", "ChainRulesCore", "DiffRules", "Distributed", "FillArrays", "ForwardDiff", "GPUArrays", "GPUArraysCore", "IRTools", "InteractiveUtils", "LinearAlgebra", "LogExpFunctions", "MacroTools", "NaNMath", "PrecompileTools", "Random", "Requires", "SparseArrays", "SpecialFunctions", "Statistics", "ZygoteRules"] -git-tree-sha1 = "66c238ba5524b9d86a76f767e2718797e74b3396" -repo-rev = "master" -repo-url = "https://github.com/FluxML/Zygote.jl.git" +git-tree-sha1 = "4ddb4470e47b0094c93055a3bcae799165cc68f1" uuid = "e88e6eb3-aa80-5325-afca-941959d7151f" -version = "0.6.67" +version = "0.6.69" [deps.Zygote.extensions] ZygoteColorsExt = "Colors" @@ -2297,15 +2562,21 @@ version = "0.6.67" [[deps.ZygoteRules]] deps = ["ChainRulesCore", "MacroTools"] -git-tree-sha1 = "9d749cd449fb448aeca4feee9a2f4186dbb5d184" +git-tree-sha1 = "27798139afc0a2afa7b1824c206d5e87ea587a00" uuid = "700de1a5-db45-46bc-99cf-38207098b444" -version = "0.2.4" +version = "0.2.5" [[deps.cuDNN]] deps = ["CEnum", "CUDA", "CUDA_Runtime_Discovery", "CUDNN_jll"] -git-tree-sha1 = "c092c26591a851083ed3358890d0d916c58dde62" +git-tree-sha1 = "1f6a185a8da9bbbc20134b7b935981f70c9b26ad" uuid = "02a925ec-e4fe-4b08-9a7e-0d78e3d38ccd" -version = "1.2.1" +version = "1.3.1" + +[[deps.eudev_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "gperf_jll"] +git-tree-sha1 = "431b678a28ebb559d224c0b6b6d01afce87c51ba" +uuid = "35ca27e7-8b34-5b7f-bca9-bdc33f59eb06" +version = "3.2.9+0" [[deps.fzf_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -2313,6 +2584,24 @@ git-tree-sha1 = "a68c9655fbe6dfcab3d972808f1aafec151ce3f8" uuid = "214eeab7-80f7-51ab-84ad-2988db7cef09" version = "0.43.0+0" +[[deps.glmnet_jll]] +deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "Libdl", "Pkg"] +git-tree-sha1 = "31adae3b983b579a1fbd7cfd43a4bc0d224c2f5a" +uuid = "78c6b45d-5eaf-5d68-bcfb-a5a2cb06c27f" +version = "2.0.13+0" + +[[deps.gperf_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] +git-tree-sha1 = "3516a5630f741c9eecb3720b1ec9d8edc3ecc033" +uuid = "1a1c6b14-54f6-533d-8383-74cd7377aa70" +version = "3.1.1+0" + +[[deps.libaec_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "46bf7be2917b59b761247be3f317ddf75e50e997" +uuid = "477f73a3-ac25-53e9-8cc3-50b2fa2566f0" +version = "1.1.2+0" + [[deps.libaom_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] git-tree-sha1 = "3a2ea60308f0996d26f1e5354e10c24e9ef905d4" @@ -2328,7 +2617,19 @@ version = "0.15.1+0" [[deps.libblastrampoline_jll]] deps = ["Artifacts", "Libdl"] uuid = "8e850b90-86db-534c-a0d3-1478176c7d93" -version = "5.8.0+0" +version = "5.8.0+1" + +[[deps.libevdev_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] +git-tree-sha1 = "141fe65dc3efabb0b1d5ba74e91f6ad26f84cc22" +uuid = "2db6ffa8-e38f-5e21-84af-90c45d0032cc" +version = "1.11.0+0" + +[[deps.libevent_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "OpenSSL_jll"] +git-tree-sha1 = "f04ec6d9a186115fb38f858f05c0c4e1b7fc9dcb" +uuid = "1080aeaf-3a6a-583e-a51c-c537b09f60ec" +version = "2.1.13+1" [[deps.libfdk_aac_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -2336,11 +2637,17 @@ git-tree-sha1 = "daacc84a041563f965be61859a36e17c4e4fcd55" uuid = "f638f0a6-7fb0-5443-88ba-1cc74229b280" version = "2.0.2+0" +[[deps.libinput_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "eudev_jll", "libevdev_jll", "mtdev_jll"] +git-tree-sha1 = "ad50e5b90f222cfe78aa3d5183a20a12de1322ce" +uuid = "36db933b-70db-51c0-b978-0f229ee0e533" +version = "1.18.0+0" + [[deps.libpng_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Zlib_jll"] -git-tree-sha1 = "94d180a6d2b5e55e447e2d27a29ed04fe79eb30c" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Zlib_jll"] +git-tree-sha1 = "d7015d2e18a5fd9a4f47de711837e980519781a4" uuid = "b53b4c65-9356-5827-b1ea-8c7a1a84506f" -version = "1.6.38+0" +version = "1.6.43+1" [[deps.libsixel_jll]] deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Pkg", "libpng_jll"] @@ -2354,15 +2661,33 @@ git-tree-sha1 = "b910cb81ef3fe6e78bf6acee440bda86fd6ae00c" uuid = "f27f6e37-5d2b-51aa-960f-b287f2bc3b7a" version = "1.3.7+1" +[[deps.mtdev_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] +git-tree-sha1 = "814e154bdb7be91d78b6802843f76b6ece642f11" +uuid = "009596ad-96f7-51b1-9f1b-5ce2d5e8a71e" +version = "1.1.6+0" + [[deps.nghttp2_jll]] deps = ["Artifacts", "Libdl"] uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d" -version = "1.48.0+0" +version = "1.52.0+1" + +[[deps.oneTBB_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "7d0ea0f4895ef2f5cb83645fa689e52cb55cf493" +uuid = "1317d2d5-d96f-522e-a858-c73665f53c3e" +version = "2021.12.0+0" [[deps.p7zip_jll]] deps = ["Artifacts", "Libdl"] uuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0" -version = "17.4.0+0" +version = "17.4.0+2" + +[[deps.prrte_jll]] +deps = ["Artifacts", "Hwloc_jll", "JLLWrappers", "Libdl", "PMIx_jll", "libevent_jll"] +git-tree-sha1 = "5adb2d7a18a30280feb66cad6f1a1dfdca2dc7b0" +uuid = "eb928a42-fffd-568d-ab9c-3f5d54fc65b9" +version = "3.0.2+0" [[deps.x264_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] diff --git a/Project.toml b/Project.toml index 10dd32f..c1e0fec 100644 --- a/Project.toml +++ b/Project.toml @@ -1,11 +1,12 @@ name = "ScatteringTransform" uuid = "eadaac29-8b6b-5395-80fd-9ce36bb46293" author = ["David Weber "] -version = "0.6.2" +version = "0.6.4" [deps] AbstractFFTs = "621f4979-c628-5d54-868e-fcf4e3e8185c" Adapt = "79e6a3ab-5dfb-504d-930d-738a2a938a0e" +BlackBoxOptim = "a134a8b2-14d6-55f6-9291-3336d3ab0209" CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba" ChainRules = "082447d4-558c-5d27-93f4-14fc19e9eca2" ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" @@ -14,17 +15,26 @@ DSP = "717857b8-e6f2-59f4-9121-6e50c889abd2" Dates = "ade2ca70-3891-5945-98fb-dc099432e06a" Distributed = "8ba89e20-285c-5b6f-9357-94700520ee1b" DistributedArrays = "aaf54ef3-cdf8-58ed-94cc-d582ad619b94" +Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f" FFTW = "7a1cc6ca-52ef-59f5-83cd-3a7055c09341" +FileIO = "5789e2e9-d7fb-5bc7-8068-2c6fae9b9549" Flux = "587475ba-b771-5e3f-ad9e-33799f191a9c" FourierFilterFlux = "3d7dfd45-6c90-4c9b-b697-194a05757159" +GLMNet = "8d5ece8b-de18-5317-b113-243142960cc6" HDF5 = "f67ccb44-e63f-5c2f-98bd-6dc0ccc4ba2f" Interpolations = "a98d9a8b-a2ab-59e6-89dd-64a1c18fca59" JLD = "4138dd39-2aa7-5051-a626-17a0bb65d9c8" JLD2 = "033835bb-8acc-5ee8-8aae-3f567f8a3819" LaTeXStrings = "b964fa9f-0449-5b57-a5c2-d3ea65f4040f" +Latexify = "23fbe1c1-3f47-55db-b15f-69d7ec21a316" LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e" -MonogenicFilterFlux = "08a3b3d4-a326-42ad-8bf2-aae8cae0b9e1" +LocalRegistry = "89398ba2-070a-4b16-a995-9893c55d93cf" +MLDataUtils = "cc2ba9b6-d476-5e6d-8eaf-a92d5412d41d" +MLJ = "add582a8-e3ab-11e8-2d5e-e98b27df1bc7" +MLJBase = "a7f614a8-145f-11e9-1d2a-a57a1082229d" +MonogenicFilterFlux = "27e6407a-9159-4acb-a68a-dfae66d408cf" NNlib = "872c559c-99b0-510c-b3b7-b6c96a88d5cd" +NearestNeighbors = "b8a86587-4115-5ab1-83bc-aa920d37bbce" Plots = "91a5bcdd-55d7-5caf-9e0b-520d859cae80" Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c" RecipesBase = "3cdcf5f2-1ef4-517c-9805-6587b60abb01" diff --git a/README.md b/README.md index 2cb0671..70fe20d 100644 --- a/README.md +++ b/README.md @@ -11,7 +11,7 @@ An implementation of the generalized scattering transform in Julia. Documentatio Basic installation: at the moment, this is not an official package. Because of this, to install it, you must first clone it, then make it accessible to your project. ### Dependencies -This uses a modified version of Wavelets.jl that can be found [here](https://github.com/dsweber2/Wavelets.jl), and added via `Pkg.develop("https://github.com/dsweber2/Wavelets.jl.git")`. +This uses Wai Ho Chak's `rotated_monogenic.jl` package that can be found [here](https://github.com/UCD4IDS/rotated_monogenic.jl), and added via `Pkg.develop("https://github.com/UCD4IDS/rotated_monogenic.jl.git")`. ### Installation @@ -25,6 +25,4 @@ setting `JULIA_NUM_THREADS = 1` before calling `Pkg.build`. ## Basic Usage -This implementation works strictly on 1 dimensional data and uses Morlet wavelets. If you give it data that has more dimensions, it will transform along the last dimension. There are 2 steps to applying a scattering transform. The first is constructing the transform, done with `stParallel(m,example)`. Then you need to actually transform the data; if you are investigating a single example, use `st(f, layers)` to get a `Scattered`, a type containing both the intermediate results and the output of each layer. On the other hand, if you're transforming a large set, and only want the outputs, possibly highly subsampled, use `thinSt`. - -For more detailed description, see the file [basicUsage.jl](basicUsage.jl) +This implementation works strictly on 1 dimensional data and uses Morlet waveletsby default. If you supply data that has more dimensions, it will transform along the last dimension. For more detailed description, see the documentation (docs/basicUsage.jl) diff --git a/docs/Manifest.toml b/docs/Manifest.toml deleted file mode 100644 index 3714d39..0000000 --- a/docs/Manifest.toml +++ /dev/null @@ -1,1353 +0,0 @@ -# This file is machine-generated - editing it directly is not advised - -julia_version = "1.7.3" -manifest_format = "2.0" - -[[deps.ANSIColoredPrinters]] -git-tree-sha1 = "574baf8110975760d391c710b6341da1afa48d8c" -uuid = "a4c015fc-c6ff-483c-b24f-f7ea428134e9" -version = "0.0.1" - -[[deps.AbstractFFTs]] -deps = ["ChainRulesCore", "LinearAlgebra"] -git-tree-sha1 = "69f7020bd72f069c219b5e8c236c1fa90d2cb409" -uuid = "621f4979-c628-5d54-868e-fcf4e3e8185c" -version = "1.2.1" - -[[deps.Adapt]] -deps = ["LinearAlgebra"] -git-tree-sha1 = "195c5505521008abea5aee4f96930717958eac6f" -uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e" -version = "3.4.0" - -[[deps.ArgTools]] -uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f" - -[[deps.ArrayInterface]] -deps = ["ArrayInterfaceCore", "Compat", "IfElse", "LinearAlgebra", "Static"] -git-tree-sha1 = "0582b5976fc76523f77056e888e454f0f7732596" -uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9" -version = "6.0.22" - 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-[[deps.nghttp2_jll]] -deps = ["Artifacts", "Libdl"] -uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d" - -[[deps.p7zip_jll]] -deps = ["Artifacts", "Libdl"] -uuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0" - -[[deps.x264_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "4fea590b89e6ec504593146bf8b988b2c00922b2" -uuid = "1270edf5-f2f9-52d2-97e9-ab00b5d0237a" -version = "2021.5.5+0" - -[[deps.x265_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "ee567a171cce03570d77ad3a43e90218e38937a9" -uuid = "dfaa095f-4041-5dcd-9319-2fabd8486b76" -version = "3.5.0+0" - -[[deps.xkbcommon_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Wayland_jll", "Wayland_protocols_jll", "Xorg_libxcb_jll", "Xorg_xkeyboard_config_jll"] -git-tree-sha1 = "9ebfc140cc56e8c2156a15ceac2f0302e327ac0a" -uuid = "d8fb68d0-12a3-5cfd-a85a-d49703b185fd" -version = "1.4.1+0" diff --git a/docs/Project.toml b/docs/Project.toml index fa8529b..fb5c025 100644 --- a/docs/Project.toml +++ b/docs/Project.toml @@ -2,6 +2,6 @@ ContinuousWavelets = "96eb917e-2868-4417-9cb6-27e7ff17528f" Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4" FourierFilterFlux = "3d7dfd45-6c90-4c9b-b697-194a05757159" -ScatteringPlots = "196eb918-4f6f-4958-a9e4-adbde22f279d" ScatteringTransform = "eadaac29-8b6b-5395-80fd-9ce36bb46293" Wavelets = "29a6e085-ba6d-5f35-a997-948ac2efa89a" +cuDNN = "02a925ec-e4fe-4b08-9a7e-0d78e3d38ccd" diff --git a/docs/make.jl b/docs/make.jl index 97c53b3..30f17c1 100644 --- a/docs/make.jl +++ b/docs/make.jl @@ -1,31 +1,27 @@ -using Documenter, ScatteringTransform, ScatteringPlots - ENV["PLOTS_TEST"] = "true" ENV["GKSwstype"] = "100" ENV["LINES"] = "9" ENV["COLUMNS"] = "60" +using Documenter, ScatteringTransform -makedocs(; - modules=[ScatteringTransform, ScatteringPlots], - format=Documenter.HTML(), - pages=[ - "Home" => "index.md", - "Scattering Transform" => [ +makedocs( + sitename = "ScatteringTransform.jl", + format = Documenter.HTML(), + authors="David Weber, Naoki Saito", + clean=true, + pages = Any[ + "Home" => "index.md", + "Scattering Transform" => Any[ "scatteringTransform type" => "struct.md", "ScatteredOut type" => "out.md", "Subsampling Operators" => "subsampling.md", "Path Operations" => "pathLocs.md", "Utilities" => "utils.md", - ], - "Scattering Plots" => [ - "Plots" => "plots.md", + "Plotting Utilities" => "plots.md", ], ], - sitename="ScatteringTransform.jl", - authors="David Weber", - clean=true ) deploydocs(; - repo="github.com/dsweber2/ScatteringTransform.jl.git" + repo="github.com/BoundaryValueProblems/ScatteringTransform.jl.git" ) diff --git a/src/ScatteringTransform.jl b/src/ScatteringTransform.jl index 65588a2..ed79a4f 100644 --- a/src/ScatteringTransform.jl +++ b/src/ScatteringTransform.jl @@ -45,4 +45,6 @@ include("utilities.jl") export getWavelets, flatten, roll, importantCoords, batchOff, getParameters, getMeanFreq, computeLoc export roll, wrap, flatten include("adjoints.jl") +include("scatteringplots.jl") +export jointPlot, plotFirstLayer1D, gifFirstLayer, plotSecondLayer, plotSecondLayer1D end # end Module diff --git a/src/pool.jl b/src/pool.jl index b9ef098..943c522 100644 --- a/src/pool.jl +++ b/src/pool.jl @@ -14,27 +14,40 @@ import NNlib.maxpool @doc """ RationPool{A,B} -An extension of Flux's `MaxPool` and `MeanPool` to subsampling by rational amounts as well. Don't construct directly. Has fields `r.m`, which is the pooling operator as implemented in Flux, and `r.resSize`, which gives the subsampling rates, either as `Integer`, `Rational`, or tuples of these. - -It works by first applying the given pooling operator, but with a step size of 1, and then keeping `p` out of `q` entries, where `p` is the numerator of the rational rate, and `q` is the denominator. +An extension of Flux's `MaxPool` and `MeanPool` to subsampling by rational amounts +as well. Don't construct directly. Has fields `r.m`, which is the pooling operator +as implemented in Flux, and `r.resSize`, which gives the subsampling rates, either +as `Integer`, `Rational`, or tuples of these. + +It works by first applying the given pooling operator, but with a step size of 1, +and then keeping `p` out of `q` entries, where `p` is the numerator of the rational +rate, and `q` is the denominator. """ struct RationPool{A,B} m::A # should inheret from MaxPool resSize::B # a tuple of ints and rationals end -function Base.show(io::IO, m::RationPool) - print(io, "RationPool(windowSize=$(m.m.k), poolingRate=$(m.resSize))") +function Base.show(io::IO, rp::RationPool) + print(io, "RationPool(windowSize=$(rp.m.k), poolingRate=$(rp.resSize))") end @doc """ RationPool(resSize, k=2; nExtraDims=1, poolType = MeanPool) -Construct a `RationPool` instance, which is a slight extension of the Flux pooling methods to subsample at a rational rate `resSize`, which can vary by channel. For example, for a 2D input, `resSize` could be `(2,3//2)`, `3//2` (equivalent to `(3//2, 3//2)`), or `(5//3, 5//3)`. +Construct a `RationPool` instance, which is a slight extension of the Flux pooling +methods to subsample at a rational rate `resSize`, which can vary by channel. +For example, for a 2D input, `resSize` could be `(2,3//2)`, `3//2` (equivalent to +`(3//2, 3//2)`), or `(5//3, 5//3)`. -`k` is the window size of the pooling, and `poolType` is the type of pooling, either `MaxPool` or `MeanPool`. `nExtraDims` counts the number of dimensions uninvolved in the convolution; normally this is 2, as in `(..., nChannels, nExamples)`. You can expect pooling to work for sizes up to 5 total dimensions. +`k` is the window size of the pooling, and `poolType` is the type of pooling, +either `MaxPool` or `MeanPool`. `nExtraDims` counts the number of dimensions +uninvolved in the convolution; normally this is 2, as in `(..., nChannels, nExamples)`. +You can expect pooling to work for sizes up to 5 total dimensions. """ -function RationPool(resSize::NTuple{N,Union{<:Integer,Rational{<:Integer}}}, k=2; nExtraDims=2, poolType=MeanPool) where {N} +function RationPool(resSize::NTuple{N,Union{<:Integer,Rational{<:Integer}}}, k=2; + nExtraDims=2, poolType=MeanPool) where {N} + effResSize = (resSize..., ntuple(ii -> 1 // 1, min(nExtraDims - 2, 5))...) subBy = map(ki -> ((ki == 1) ? 1 : k), effResSize) # any non-trivial dim # should subsample at a rate of k @@ -43,8 +56,7 @@ function RationPool(resSize::NTuple{N,Union{<:Integer,Rational{<:Integer}}}, k=2 RationPool{typeof(m),typeof(resSize)}(m, resSize) end -RationPool(resSize::Union{<:Integer,Rational{<:Integer}}, k=3; - nExtraDims=2) = +RationPool(resSize::Union{<:Integer,Rational{<:Integer}}, k=3; nExtraDims=2) = RationPool((resSize,), k; nExtraDims=nExtraDims) import Base: getindex diff --git a/src/scatteringplots.jl b/src/scatteringplots.jl new file mode 100644 index 0000000..545a588 --- /dev/null +++ b/src/scatteringplots.jl @@ -0,0 +1,223 @@ +""" + plotFirstLayer1D(j,origLoc,cline=:darkrainbow) +""" +function plotFirstLayer1D(j, origLoc, original, cline=:darkrainbow) + + space = plot(origLoc[1][:, :, j], line_z=(1:size(origLoc[1], 2))', + legend=false, colorbar=true, color=cline, + title="first layer gradient wavelet $j varying location") + org = plot([original original], line_z=([-20; 1:size(origLoc[1], 2)...])', legend=false, colorbar=true, color=cline) # todo: including the colorbar here is a real hack to get them to line up + ∇h = heatmap(origLoc[1][:, 1:end, j]', xlabel="space", + ylabel="wavelet location", title="First layer gradient j=$j") + ∇̂h = heatmap(log.(abs.(rfft(origLoc[1][:, 1:end, j], 1)) .^ 2)', xlabel="frequency", + ylabel="wavelet location", title="Log Power Frequency domain j=$j") + l = Plots.@layout [a; b{0.1h}; [b c]] + plot(space, org, ∇h, ∇̂h, layout=l) +end + +""" + gifFirstLayer(origLoc, saveTo="tmp.gif", fps = 2) +""" +function gifFirstLayer(origLoc, firstSig, saveTo="gradientFigures/tmp.gif", fps=2) + anim = Animation() + for j = 1:size(origLoc[1])[end] + plotFirstLayer1D(j, origLoc, firstSig) + frame(anim) + end + gif(anim, saveTo, fps=2) +end + +meanWave(wave) = sum(real.(range(0, stop=1, length=size(wave, 1)) .* wave), dims=1) ./ sum(real.(wave), dims=1) + +function plotSecondLayer1D(loc, origLoc, wave1, wave2, original=false, subsamSz=(128, 85,), c=:thermal, lastDiagFreq=true) + waveUsed = real.(ifftshift(irfft(wave1[:, loc[2]], subsamSz[1] * 2))) + l1wave = plot(waveUsed, legend=false, titlefontsize=8, title="layer 1 ($(loc[2]))") + annotate!(size(waveUsed, 1) * 5 / 6, maximum(waveUsed), Plots.text("freq = $(meanWave(wave1)[loc[2]])"[1:13], 5)) + waveUsed = real.(ifftshift(irfft(wave2[:, loc[1]], subsamSz[2] * 2))) + l2wave = plot(waveUsed, legend=false, titlefontsize=8, title="layer 2 ($(loc[1]))") + annotate!(size(waveUsed, 1) * 5 / 6, maximum(waveUsed), + Plots.text("freq = $(meanWave(wave2)[loc[1]])"[1:13], 5)) + if original != false + org = plot([original original], line_z=(1:size(origLoc[1], 2))', legend=false, colorbar=true, color=:darkrainbow) # todo: including the colorbar here is a real hack to get them to line up + end + ∇heat = heatmap(origLoc[2][:, :, loc...]', ylabel="wavelet location", + xlabel="space", color=c, title="second layer gradient ") + if lastDiagFreq + ∇plt = heatmap(log.(abs.(rfft(origLoc[2][:, :, loc...], 1))), xlabel="wavelet location", ylabel="frequency", color=c, title="varying location, path $(loc[2:-1:1])") + else + ∇plt = plot(origLoc[2][:, :, loc...], line_z=(28:-1:1)', legend=false, color=:cividis, title="varying location, path $(loc[2:-1:1])") + end + + if original != false + l = Plots.@layout [[a; b{0.1h}; [c d]] e] + return plot(∇heat, org, l1wave, l2wave, ∇plt, layout=l) + else + l = Plots.@layout [[a; [b c]] d] + return plot(∇heat, l1wave, l2wave, ∇plt, layout=l) + end +end + +""" + plotSecondLayer(stw; title="Second Layer results", xVals=-1, yVals=-1, logPower=true, toHeat=nothing, c=cgrad(:viridis, [0,.9]), threshold=0, linePalette=:greys, minLog=NaN, kwargs...) +TODO fix the similarity of these names. +xVals and yVals give the spacing of the grid, as it doesn't seem to be done +correctly by default. xVals gives the distance from the left and the right +as a tuple, while yVals gives the distance from the top and the bottom, +also as a tuple. Default values are `xVals = (.037, .852), yVals = (.056, .939)`, or if you have no title, use `xVals = (.0105, .882), yVals = (.056, .939)` +If you have no colorbar, set `xVals = (.0015, .997), yVals = (.002, .992)` +In the case that arbitrary space has been introduced, if you have a title, use `xVals = (.037, .852), yVals = (.056, .939)`, or if you have no title, use `xVals = (.0105, .882), yVals = (.056, .939)` +""" +function plotSecondLayer(stw::ScatteredOut, st; kwargs...) + secondLayerRes = stw[2] + if ndims(secondLayerRes) > 3 + return plotSecondLayer(secondLayerRes[:, :, :, 1], st; kwargs...) + else + return plotSecondLayer(secondLayerRes, st; kwargs...) + end +end + +function plotSecondLayer(stw, st; title="Second Layer results", xVals=-1, yVals=-1, logPower=true, toHeat=nothing, c=cgrad(:viridis, [0, 0.9]), threshold=0, freqsigdigits=3, linePalette=:greys, minLog=NaN, subClims=(Inf, -Inf), δt=1000, firstFreqSpacing=nothing, secondFreqSpacing=nothing, transp=true, labelRot=30, xlabel=nothing, ylabel=nothing, frameTypes=:box, miniFillAlpha=0.5, kwargs...) + n, m = size(stw)[2:3] + freqs = getMeanFreq(st, δt) + freqs = map(x -> round.(x, sigdigits=freqsigdigits), freqs)[1:2] + gr(size=2.5 .* (280, 180)) + if !(typeof(c) <: PlotUtils.ContinuousColorGradient) + c = cgrad(c) + end + if toHeat == nothing + toHeat = [norm(stw[:, i, j, 1]) for i = 1:n, j = 1:m] + end + if firstFreqSpacing == nothing + firstFreqSpacing = 1:m + end + if secondFreqSpacing == nothing + secondFreqSpacing = 1:n + end + # transp means transpose so that the second layer frequency is along the x-axis + if transp + xTicksFreq = (secondFreqSpacing, freqs[2][secondFreqSpacing]) + yTicksFreq = (firstFreqSpacing, freqs[1][firstFreqSpacing]) + freqs = reverse(freqs) + nTmp = n + n = m + m = nTmp + toHeat = toHeat' + xInd = 2 + yInd = 1 + stw = permutedims(stw, (1, 3, 2, (4:ndims(stw))...)) + else + xTicksFreq = (firstFreqSpacing, freqs[1][firstFreqSpacing]) + yTicksFreq = (secondFreqSpacing, freqs[2][secondFreqSpacing]) + (1:m, freqs[1]) + xInd = 1 + yInd = 2 + end + if xVals == -1 && title == "" + xVals = (0.0105, 0.882) + elseif xVals == -1 + xVals = (0.002, 0.880) + end + Δx = xVals[2] - xVals[1] + xrange = range(xVals[1] + Δx / m - Δx / (m + 3), + stop=xVals[2] - 2 * Δx / (m + 3) + Δx / m, length=m) + if yVals == -1 + yVals = (0.0, 0.995) + end + Δy = yVals[2] - yVals[1] + yrange = range(yVals[1] + Δy / n - Δy / (n + 3), stop=yVals[2] - 2 * Δy / (n + 3) + Δy / n, length=n) + if logPower + toHeat = log10.(toHeat) + if !isnan(minLog) + toHeat = max.(minLog, toHeat) + end + end + bottom = min(minimum(toHeat), subClims[1]) + top = max(subClims[2], maximum(toHeat)) + totalRange = top - bottom + # substitute given x and y labels if needed + if isnothing(xlabel) + xlabel = "Layer $(xInd) frequency (Hz)" + end + if isnothing(ylabel) + ylabel = "Layer $(yInd) frequency (Hz)" + end + + if title == "" + plt = heatmap(toHeat; yticks=yTicksFreq, xticks=xTicksFreq, tick_direction=:out, rotation=labelRot, + xlabel=xlabel, ylabel=ylabel, c=c, clims=(bottom, top), kwargs...) + else + plt = heatmap(toHeat; yticks=yTicksFreq, xticks=xTicksFreq, tick_direction=:out, rotation=labelRot, + title=title, xlabel=xlabel, ylabel=ylabel, c=c, clims=(bottom, top), kwargs...) + end + nPlot = 2 + for i in 1:n, j in 1:m + if maximum(abs.(stw[:, i, j, :])) > threshold + plt = plot!(stw[:, i, j, :], legend=false, subplot=nPlot, + bg_inside=c[(toHeat[i, j]-bottom)/totalRange], + ticks=nothing, palette=linePalette, frame=frameTypes, + inset=(1, bbox(xrange[j], yrange[i], Δx / (m + 10), + Δy / (n + 10), :bottom, :left)), fill=0, fillalpha=miniFillAlpha) + nPlot += 1 + end + end + plt +end + +function jointPlot(thingToPlot, thingName, cSymbol, St; sharedColorScaling=:exp, targetExample=1, δt=1000, freqigdigits=3, sharedColorbar=true, extraPlot=nothing, allPositive=false, logPower=false, kwargs...) + if sharedColorbar + clims = (min(minimum.(thingToPlot)...), max(maximum.(thingToPlot)...)) + climszero = clims + climsfirst = clims + climssecond = clims + toHeat = [norm(thingToPlot[2][:, i, j, 1], Inf) for i = 1:size(thingToPlot[2], 2), j = 1:size(thingToPlot[2], 3)] + else + climszero = (min(minimum.(thingToPlot[0])...), max(maximum.(thingToPlot[0])...)) + climsfirst = (min(minimum.(thingToPlot[1])...), max(maximum.(thingToPlot[1])...)) + climssecond = (min(minimum.(thingToPlot[2])...), max(maximum.(thingToPlot[2])...)) + toHeat = [norm(thingToPlot[2][:, i, j, 1], Inf) for i = 1:size(thingToPlot[2], 2), j = 1:size(thingToPlot[2], 3)] + end + firstLay = thingToPlot[1][:, :, targetExample]' + zeroLay = thingToPlot[0][:, :, targetExample]' + toHeat[toHeat.==0] .= -Inf # we would like zeroes to not actually render + firstLay[firstLay.==0] .= -Inf # for either layer + + # adjust the other parts to be log if logPower is true + if logPower && allPositive + absThing = map(x -> abs.(x), (thingToPlot[0], thingToPlot[1], thingToPlot[2])) + clims = (min(minimum.(absThing)...), max(maximum.(absThing)...)) + firstLay = log10.(firstLay) + zeroLay = log10.(abs.(zeroLay)) + climszero = log10.(clims) + climsfirst = log10.(clims) + climssecond = log10.(clims) + elseif logPower + error("not currently plotting log power and negative values") + end + + if allPositive + c = cgrad(cSymbol, scale=sharedColorScaling) + cSecond = cgrad(cSymbol) + else + zeroAt = -climssecond[1] / (climssecond[2] - climssecond[1]) # set the mid color switch to zero + c = cgrad(cSymbol, [0, zeroAt], scale=sharedColorScaling) + cSecond = cgrad(cSymbol, [0, zeroAt]) + end + + # define the spatial locations as they correspond to the input + spaceLocs = range(1, size(St)[1], length=length(zeroLay)) + + p2 = plotSecondLayer(thingToPlot[2][:, :, :, targetExample], St; title="Second Layer", toHeat=toHeat, logPower=logPower, c=c, clims=climssecond, subClims=climssecond, cbar=false, xVals=(0.000, 0.993), yVals=(0.0, 0.994), transp=true, xlabel="", kwargs...) + freqs = getMeanFreq(St, δt) + freqs = map(x -> round.(x, sigdigits=freqigdigits), freqs) + p1 = heatmap(firstLay, c=c, title="First Layer", clims=climsfirst, cbar=false, yticks=((1:size(firstLay, 1)), ""), xticks=((1:size(firstLay, 2)), ""), bottom_margin=-10Plots.px) + p0 = heatmap(spaceLocs, 1:1, zeroLay, c=c, xlabel="time (ms)\nZeroth Layer", clims=climszero, cbar=false, yticks=nothing, top_margin=-10Plots.px, bottom_margin=10Plots.px) + colorbarOnly = scatter([0, 0], [0, 1], zcolor=[0, 3], clims=climssecond, xlims=(1, 1.1), xshowaxis=false, yshowaxis=false, label="", c=c, grid=false, framestyle=:none) + if extraPlot == nothing + # extraPlot = scatter([0,0], [0,1], legend=false, grid=false, x="Layer 2 frequency", foreground_color_subplot=:white, top_margin=-10Plots.px, showaxis=false, yticks=nothing) + extraPlot = plot(xlabel="Layer 2 frequency (Hz)", grid=false, xticks=(1:5, ""), showaxis=false, yticks=nothing, bottom_margin=-10Plots.px, top_margin=-20Plots.px) + # extraPlot = heatmap(zeroLay, c=c, xlabel="location\nZeroth Layer", clims=climszero, cbar=false, yticks=nothing, top_margin=-10Plots.px, bottom_margin=10Plots.px) + end + titlePlot = plot(title=thingName, grid=false, showaxis=false, xticks=nothing, yticks=nothing, bottom_margin=-10Plots.px) + lay = Plots.@layout [o{0.00001h}; [[a b; c{0.1h} d{0.1h}] b{0.04w}]] + plot(titlePlot, p2, p1, extraPlot, p0, colorbarOnly, layout=lay) +end diff --git a/src/shared.jl b/src/shared.jl index 419e6ca..c62ea89 100644 --- a/src/shared.jl +++ b/src/shared.jl @@ -30,9 +30,9 @@ function Base.show(io::IO, st::stFlux{Dim,Dep}) where {Dim,Dep} layers = st.mainChain.layers σ = st.settings[:σ] Nd = ndims(st) - nFilters = [length(layers[i].weight) - 1 for i = 1:3:(3*Dim)] + nFilters = [length(layers[i].weight) - 1 for i = 1:3:(3*Dep)] batchSize = getBatchSize(layers[1]) - print(io, "stFlux{$(Dep), Nd=$(Nd), filters=$(nFilters), σ = " * + print(io, "stFlux{Nd=$(Nd), m=$(Dep), filters=$(nFilters), σ = " * "$(σ), batchSize = $(batchSize), normalize = $(st.normalize)}") end diff --git a/src/transform.jl b/src/transform.jl index 6ee6b31..81be42f 100644 --- a/src/transform.jl +++ b/src/transform.jl @@ -1,10 +1,57 @@ """ - stFlux(inputSize::NTuple{N}, m=2; trainable=false, - normalize=true, outputPool=2, - poolBy=3 // 2, σ=abs, flatten=false, kwargs...) + stFlux(inputSize::NTuple{N}, m=2; outputPool = 2, poolBy = 3//2, + σ = abs, normalize = true, flatten = false, trainable = false, kwargs...) + where {N} -Create a scattering transform of depth `m` (which returns a `m+1` depth list of arrays stored in a [`ScatteredOut`](@ref)) that subsamples at a rate of `poolBy` each layer, using `scales[i]` and `shearLevels[i]` at each layer. `normalize` means give each layer the same average weight per path, e.g. since the zeroth layer has one path, give it norm 1, if the first layer has 16 paths, give the sum across all first layer paths norm 16, etc. This is primarily for cases where the classification algorithm needs roughly the same order of -magnitude variance. `flatten` means return a result that is a matrix of size `(:,nExamples)` where `nExamples` is the last dimension of `inputSize`. `σ` is the nonlinearity used. Any additional keyword args `kwargs...` come from either the FourierFilterFlux [`waveletLayerConstructor`](https://dsweber2.github.io/FourierFilterFlux.jl/dev/constructors/#FourierFilterFlux.waveletLayer), or subsequently from ContinuousWavlets [`wavelet`](https://dsweber2.github.io/ContinuousWavelets.jl/dev/CWTConstruction/) constructor ContinuousWavelets. +Create a complete setting of scattering transform that can be applied to a set of +input signals +### Input Arguments +* `inputSize::NTuple{N}`: The size of the input signals. It should be of `NTuple` +type. For example, for a set of `M` 1D signals each of which has length `N`, +it should be `(N, 1, M)`. For a set of `M` 2D signals each of which is of size +`N₁` × `N₂`, it should be `(N₁, N₂, 1, M)`. Note that the input signal array +that will be transformed by the output function from this `stFlux` must have the +same dimension structure as this `inputSize::NTuple{N}`. E.g., if the input 1D +signals are arrange as a matrix of size `(N, M)`, it must be converted to an +array of size `(N, 1, M)` using `reshape` function before applying the transform. +* `m=2`: The maximum depth of the scattering transform. The default value is `2`. +Note that the depth (or layer) index starts with `0`. So, this scattering transform +sets up `m+1` layers. +* `outputPool = 2`: Subsampling rate after averaging in each layer (it's present +here because averaging removes the high frequencies, so the full signal is inherently +redundant). Can specify different subsampling rates for each direction for 2D +input signals with e.g., `outputPool=(2,3)`. Has a similar structure to poolBy. +* `poolBy = 3//2`: Subsampling rate at each layer for the intermediate representation. +The default value is `3//2` for each layer. Layer-dependent rates can be specified by +supplying `NTuple`, e.g., `(3//2, 2, 3)` for 0th, 1st, and 2nd layers. +* `σ = abs`: The nonlinearity function used. The default function is `abs`, i.e., +computing the modulus. +* `normalize = true`: If it's `true`, it gives each layer the same average weight +per path, e.g., norm 1 for the 0th layer (since it has only one path), norm 16 +for the 1st layer paths (if the first layer has 16 paths), etc. This is primarily +for cases where the classification algorithm needs roughly the same order of +magnitude variance. +* `flatten = false`: If false, it returns a result that is a matrix of size +`(:,nExamples)` where `nExamples` is the last dimension of `inputSize`. If it's +`true`, then return a matrix that is `(nCoefficients,nExamples)`. +* `trainable = false`: If it's `true`, the wavelet filters can be viewed as +weights (or parameters) to be learned and updated using standard methods from Flux.jl. +For the standard scattering transform scenarios, it should stay as `false`. +* `kwargs...`: come from either the FourierFilterFlux +[`waveletLayerConstructor`](https://dsweber2.github.io/FourierFilterFlux.jl/dev/constructors/#FourierFilterFlux.waveletLayer), +or from ContinuousWavlets [`wavelet`](https://dsweber2.github.io/ContinuousWavelets.jl/dev/CWTConstruction/) constructor ContinuousWavelets. +Note that by default, the Morlet wavelet filters are used, but one can change it +by supplying, e.g., `cw=dog2` (Difference of Gaussian or the Mexican Hat Wavelet). + +### Output Argument: +* stFlux data structure (also works as a function to apply the scattering transform on +an input signal set) whose main parameters are: +* Nd: Number of spatial dimension of the input signal set +* m: The maximus depth index +* filters: +* σ: The nonlinearity operation function +* batchSize: Number of the input signals +* normalize: a flag to normalize the output coefficients # Examples @@ -33,37 +80,43 @@ ScatteredOut{Array{Float32},3} 1 dim. OutputSizes: ``` """ -function stFlux(inputSize::NTuple{N}, m=2; trainable=false, - normalize=true, outputPool=2, - poolBy=3 // 2, σ=abs, flatten=false, kwargs...) where {N} - # N determines the number of spatial dimensions +function stFlux(inputSize::NTuple{N}, m=2; outputPool = 2, poolBy = 3//2, + σ = abs, normalize = true, flatten = false, trainable = false, kwargs...) where {N} + #= N is the length of the NTuple, from which the spatial dimension of input + signals can be determined. E.g., N=3 <=> 1D signals; N=4 <=> 2D images, etc. + =# Nd = N - 2 + # Now, setting the outputPool for multi layers if length(outputPool) == 1 # replicate for each dimension and layer outputPool = ntuple(k -> ntuple(i -> outputPool[1], Nd), m + 1) elseif length(outputPool) == m + 1 # replicate for each dimension - outputPool = ntuple(k -> ntuple(i -> outputPool[k]), m + 1) - elseif length(outputPool) == Nd + outputPool = ntuple(k -> ntuple(i -> outputPool[k], Nd), m + 1) + elseif length(outputPool) == Nd # if Nd=1 and outputPool is a scalar, this is bypassed. outputPool = ntuple(k -> outputPool, m + 1) end if typeof(poolBy) <: Union{<:Rational,<:Integer} - poolBy = map(ii -> RationPool((ntuple(i -> poolBy, N - 2)...,), + poolBy = map(ii -> RationPool((ntuple(i -> poolBy, Nd)...,), nExtraDims=nPathDims(ii + 1) + 1), 1:m+1) + # RationPool is defined in ~/pool.jl while nExtraDims in ~/shared.jl end - poolBy = makeTuple(m, poolBy) - argsToEach = processArgs(m + 1, kwargs) + poolBy = makeTuple(m, poolBy) # Defined in ~/shared.jl + argsToEach = processArgs(m + 1, kwargs) # also in ~/shared.jl listOfSizes = [(inputSize..., ntuple(i -> 1, max(i - 1, 0))...) for i = 0:m] - interstitial = Array{Any,1}(undef, 3 * (m + 1) - 2) - for i = 1:m + interstitial = Array{Any,1}(undef, 3 * (m + 1) - 2) + #= `interstitial` is an array of 3 functions per layer: + 1) wavelet filtering; 2) nonlinearity; 3) pooling + =# + for i = 1:m # from Layer 1 to Layer m # first transform interstitial[3*i-2] = dispatchLayer(listOfSizes[i], Val(Nd); σ=identity, argsToEach[i]...) nFilters = length(interstitial[3*i-2].weight) - pooledSize = poolSize(poolBy[i], listOfSizes[i][1:Nd]) - # then throw away the averaging (we'll pick it up in the actual transform) - # also, in the first layer, merge the channels into the first shearing, - # since max pool isn't defined for arbitrary arrays + pooledSize = poolSize(poolBy[i], listOfSizes[i][1:Nd]) # in ~/pool.jl + #= then throw away the averaging (we'll pick it up in the actual transform) + also, in the first layer, merge the channels into the first shearing, + since max pool isn't defined for arbitrary arrays =# if i == 1 listOfSizes[i+1] = (pooledSize..., (nFilters - 1) * listOfSizes[1][Nd+1], @@ -87,24 +140,33 @@ function stFlux(inputSize::NTuple{N}, m=2; trainable=false, # final averaging layer interstitial[3*m+1] = dispatchLayer(listOfSizes[end], Val(Nd); - averagingLayer=true, σ=identity, - argsToEach[end]...) - chacha = Chain(interstitial...) - outputSizes = ([(map(poolSize, outputPool[ii], x[1:Nd])..., x[(Nd+1):end]...) for (ii, x) - in - enumerate(listOfSizes)]...,) + averagingLayer=true, σ=identity, argsToEach[end]...) + + chacha = Chain(interstitial...) # Chain is from `Flux.jl` + outputSizes = ([(map(poolSize, outputPool[ii], x[1:Nd])..., x[(Nd+1):end]...) + for (ii, x) in enumerate(listOfSizes)]...,) # record the settings used pretty kludgy - settings = Dict(:outputPool => outputPool, :poolBy => poolBy, :σ => σ, :flatten => flatten, (argsToEach...)...) + settings = Dict(:outputPool => outputPool, :poolBy => poolBy, :σ => σ, + :flatten => flatten, (argsToEach...)...) return stFlux{Nd,m,typeof(chacha),typeof(outputSizes),typeof(outputPool),typeof(settings)}(chacha, normalize, outputSizes, outputPool, settings) end function dispatchLayer(listOfSizes, Nd::Val{1}; varargs...) +#= For 1D input signals, we use the conventional wavelet filters available in +our `ContinuousWavelets.jl` package. The following function is defined in yet +another package of ours: `FourierFilterFlux.jl` that is related to the popluar +`Flux.jl`. +=# waveletLayer(listOfSizes; varargs...) end function dispatchLayer(listOfSizes, Nd::Val{2}; varargs...) +#= For 2D input signals (i.e., images), we use the Monogenic Wavelet Scattering +Networks (MWSNs) of Chak and Saito. The following function is defined in our +package `MonogenicFilterFlux.jl`. +=# #shearingLayer(listOfSizes; varargs...) MonogenicLayer(listOfSizes; varargs...) end @@ -114,6 +176,9 @@ Base.size(a::Tuple{AbstractFFTs.Plan,AbstractFFTs.Plan}) = size(a[1]) # actually apply the transform function (St::stFlux{Dimension,Depth})(x::T) where {Dimension,Depth,T<:AbstractArray} + #= This actually performs the scattering transform on an input signal set. + The name of the function is the output structed returned in the above + `stFlux` function in this file. =# mc = St.mainChain.layers if ndims(x) < length(size(mc[1])) # the input is missing dimensions, so reshape