diff --git a/docs/Manifest.toml b/docs/Manifest.toml index e6d72c6..9881b38 100644 --- a/docs/Manifest.toml +++ b/docs/Manifest.toml @@ -1,6 +1,6 @@ # This file is machine-generated - editing it directly is not advised -julia_version = "1.10.5" +julia_version = "1.11.1" manifest_format = "2.0" project_hash = "cfe419f0a5bd446f85d5c51ed1644192d6c33e05" @@ -27,18 +27,18 @@ version = "0.4.5" [[deps.Adapt]] deps = ["LinearAlgebra", "Requires"] -git-tree-sha1 = "6a55b747d1812e699320963ffde36f1ebdda4099" +git-tree-sha1 = "50c3c56a52972d78e8be9fd135bfb91c9574c140" uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e" -version = "4.0.4" +version = "4.1.1" weakdeps = ["StaticArrays"] [deps.Adapt.extensions] AdaptStaticArraysExt = "StaticArrays" [[deps.AdaptivePredicates]] -git-tree-sha1 = "7d5da5dd472490d048b081ca1bda4a7821b06456" +git-tree-sha1 = "7e651ea8d262d2d74ce75fdf47c4d63c07dba7a6" uuid = "35492f91-a3bd-45ad-95db-fcad7dcfedb7" -version = "1.1.1" +version = "1.2.0" [[deps.AliasTables]] deps = ["PtrArrays", "Random"] @@ -54,7 +54,7 @@ version = "0.4.1" [[deps.ArgTools]] uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f" -version = "1.1.1" +version = "1.1.2" [[deps.ArnoldiMethod]] deps = ["LinearAlgebra", "Random", "StaticArrays"] @@ -82,12 +82,13 @@ version = "0.1.29" [[deps.Artifacts]] uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33" +version = "1.11.0" [[deps.Automa]] -deps = ["PrecompileTools", "TranscodingStreams"] -git-tree-sha1 = "014bc22d6c400a7703c0f5dc1fdc302440cf88be" +deps = ["PrecompileTools", "SIMD", "TranscodingStreams"] +git-tree-sha1 = "a8f503e8e1a5f583fbef15a8440c8c7e32185df2" uuid = "67c07d97-cdcb-5c2c-af73-a7f9c32a568b" -version = "1.0.4" +version = "1.1.0" [[deps.AxisAlgorithms]] deps = ["LinearAlgebra", "Random", "SparseArrays", "WoodburyMatrices"] @@ -103,12 +104,13 @@ version = "0.4.7" [[deps.Base64]] uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f" +version = "1.11.0" [[deps.Baysor]] deps = ["Base64", "CSV", "CairoMakie", "CategoricalArrays", "ColorSchemes", "Colors", "Comonicon", "Compat", "Configurations", "DataFrames", "Dates", "Deneb", "Distances", "Distributions", "FastRandPCA", "FileIO", "FiniteDiff", "GeometricalPredicates", "Graphs", "HDF5", "ImageCore", "ImageIO", "ImageMagick", "ImageMorphology", "JSON", "LazyModules", "LibGit2", "LinearAlgebra", "Logging", "MAT", "Makie", "MultivariateStats", "NearestNeighbors", "OrderedCollections", "Parquet", "Pipe", "Pkg", "ProgressMeter", "Random", "SparseArrays", "StaticArrays", "Statistics", "StatsBase", "Test", "UMAP", "UUIDs", "VoronoiDelaunay"] -path = "/Users/vpetukhov/.julia/dev/Baysor" +path = "/home/vpetukhov/.julia/dev/Baysor" uuid = "cc9f9468-1fbe-11e9-0acf-e9460511877c" -version = "0.7.0" +version = "0.7.1" [[deps.BufferedStreams]] git-tree-sha1 = "6863c5b7fc997eadcabdbaf6c5f201dc30032643" @@ -117,9 +119,9 @@ version = "1.2.2" [[deps.Bzip2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "9e2a6b69137e6969bab0152632dcb3bc108c8bdd" +git-tree-sha1 = "8873e196c2eb87962a2048b3b8e08946535864a1" uuid = "6e34b625-4abd-537c-b88f-471c36dfa7a0" -version = "1.0.8+1" +version = "1.0.8+2" [[deps.CEnum]] git-tree-sha1 = "389ad5c84de1ae7cf0e28e381131c98ea87d54fc" @@ -128,12 +130,7 @@ version = "0.5.0" [[deps.CRC32c]] uuid = "8bf52ea8-c179-5cab-976a-9e18b702a9bc" - -[[deps.CRlibm]] -deps = ["CRlibm_jll"] -git-tree-sha1 = "32abd86e3c2025db5172aa182b982debed519834" -uuid = "96374032-68de-5a5b-8d9e-752f78720389" -version = "1.0.1" +version = "1.11.0" [[deps.CRlibm_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -143,15 +140,15 @@ version = "1.0.1+0" [[deps.CSV]] deps = ["CodecZlib", "Dates", "FilePathsBase", "InlineStrings", "Mmap", "Parsers", "PooledArrays", "PrecompileTools", "SentinelArrays", "Tables", "Unicode", "WeakRefStrings", "WorkerUtilities"] -git-tree-sha1 = "6c834533dc1fabd820c1db03c839bf97e45a3fab" +git-tree-sha1 = "deddd8725e5e1cc49ee205a1964256043720a6c3" uuid = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b" -version = "0.10.14" +version = "0.10.15" [[deps.Cairo]] deps = ["Cairo_jll", "Colors", "Glib_jll", "Graphics", "Libdl", "Pango_jll"] -git-tree-sha1 = "7b6ad8c35f4bc3bca8eb78127c8b99719506a5fb" +git-tree-sha1 = "71aa551c5c33f1a4415867fe06b7844faadb0ae9" uuid = "159f3aea-2a34-519c-b102-8c37f9878175" -version = "1.1.0" +version = "1.1.1" [[deps.CairoMakie]] deps = ["CRC32c", "Cairo", "Cairo_jll", "Colors", "FileIO", "FreeType", "GeometryBasics", "LinearAlgebra", "Makie", "PrecompileTools"] @@ -161,9 +158,9 @@ version = "0.12.9" [[deps.Cairo_jll]] deps = ["Artifacts", "Bzip2_jll", "CompilerSupportLibraries_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "JLLWrappers", "LZO_jll", "Libdl", "Pixman_jll", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Zlib_jll", "libpng_jll"] -git-tree-sha1 = "a2f1c8c668c8e3cb4cca4e57a8efdb09067bb3fd" +git-tree-sha1 = "009060c9a6168704143100f36ab08f06c2af4642" uuid = "83423d85-b0ee-5818-9007-b63ccbeb887a" -version = "1.18.0+2" +version = "1.18.2+1" [[deps.CategoricalArrays]] deps = ["DataAPI", "Future", "Missings", "Printf", "Requires", "Statistics", "Unicode"] @@ -185,9 +182,9 @@ version = "0.10.8" [[deps.ChainRulesCore]] deps = ["Compat", "LinearAlgebra"] -git-tree-sha1 = "71acdbf594aab5bbb2cec89b208c41b4c411e49f" +git-tree-sha1 = "3e4b134270b372f2ed4d4d0e936aabaefc1802bc" uuid = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" -version = "1.24.0" +version = "1.25.0" weakdeps = ["SparseArrays"] [deps.ChainRulesCore.extensions] @@ -201,9 +198,9 @@ version = "0.7.6" [[deps.CodecZstd]] deps = ["TranscodingStreams", "Zstd_jll"] -git-tree-sha1 = "5e41a52bec3b0881a7eb54f5391b779994504186" +git-tree-sha1 = "d0073f473757f0d39ac9707f1eb03b431573cbd8" uuid = "6b39b394-51ab-5f42-8807-6242bab2b4c2" -version = "0.8.5" +version = "0.8.6" [[deps.ColorBrewer]] deps = ["Colors", "JSON", "Test"] @@ -249,9 +246,9 @@ version = "1.0.8" [[deps.Compat]] deps = ["TOML", "UUIDs"] -git-tree-sha1 = "b1c55339b7c6c350ee89f2c1604299660525b248" +git-tree-sha1 = "8ae8d32e09f0dcf42a36b90d4e17f5dd2e4c4215" uuid = "34da2185-b29b-5c13-b0c7-acf172513d20" -version = "4.15.0" +version = "4.16.0" weakdeps = ["Dates", "LinearAlgebra"] [deps.Compat.extensions] @@ -295,10 +292,10 @@ uuid = "9a962f9c-6df0-11e9-0e5d-c546b8b5ee8a" 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"] -git-tree-sha1 = "04c738083f29f86e62c8afc341f0967d8717bdb8" +deps = ["Compat", "DataAPI", "DataStructures", "Future", "InlineStrings", "InvertedIndices", "IteratorInterfaceExtensions", "LinearAlgebra", "Markdown", "Missings", "PooledArrays", "PrecompileTools", "PrettyTables", "Printf", "Random", "Reexport", "SentinelArrays", "SortingAlgorithms", "Statistics", "TableTraits", "Tables", "Unicode"] +git-tree-sha1 = "fb61b4812c49343d7ef0b533ba982c46021938a6" uuid = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0" -version = "1.6.1" +version = "1.7.0" [[deps.DataStructures]] deps = ["Compat", "InteractiveUtils", "OrderedCollections"] @@ -314,6 +311,7 @@ version = "1.0.0" [[deps.Dates]] deps = ["Printf"] uuid = "ade2ca70-3891-5945-98fb-dc099432e06a" +version = "1.11.0" [[deps.Decimals]] git-tree-sha1 = "e98abef36d02a0ec385d68cd7dadbce9b28cbd88" @@ -327,10 +325,10 @@ uuid = "3f0dd361-4fe0-5fc6-8523-80b14ec94d85" version = "1.1.0" [[deps.DelaunayTriangulation]] -deps = ["AdaptivePredicates", "EnumX", "ExactPredicates", "Random"] -git-tree-sha1 = "46f12daa85e5acc0ea5d5f9f8c3f1fc679e0f7e5" +deps = ["AdaptivePredicates", "EnumX", "ExactPredicates", "PrecompileTools", "Random"] +git-tree-sha1 = "89df54fbe66e5872d91d8c2cd3a375f660c3fd64" uuid = "927a84f5-c5f4-47a5-9785-b46e178433df" -version = "1.2.0" +version = "1.6.1" [[deps.Deneb]] deps = ["DefaultApplication", "JSON", "MultilineStrings", "NodeJS_18_jll", "REPL", "Tables", "UUIDs"] @@ -352,9 +350,9 @@ version = "1.15.1" [[deps.Distances]] deps = ["LinearAlgebra", "Statistics", "StatsAPI"] -git-tree-sha1 = "66c4c81f259586e8f002eacebc177e1fb06363b0" +git-tree-sha1 = "c7e3a542b999843086e2f29dac96a618c105be1d" uuid = "b4f34e82-e78d-54a5-968a-f98e89d6e8f7" -version = "0.10.11" +version = "0.10.12" weakdeps = ["ChainRulesCore", "SparseArrays"] [deps.Distances.extensions] @@ -364,12 +362,13 @@ weakdeps = ["ChainRulesCore", "SparseArrays"] [[deps.Distributed]] deps = ["Random", "Serialization", "Sockets"] uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b" +version = "1.11.0" [[deps.Distributions]] deps = ["AliasTables", "FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsAPI", "StatsBase", "StatsFuns"] -git-tree-sha1 = "e6c693a0e4394f8fda0e51a5bdf5aef26f8235e9" +git-tree-sha1 = "3101c32aab536e7a27b1763c0797dba151b899ad" uuid = "31c24e10-a181-5473-b8eb-7969acd0382f" -version = "0.25.111" +version = "0.25.113" [deps.Distributions.extensions] DistributionsChainRulesCoreExt = "ChainRulesCore" @@ -409,16 +408,11 @@ git-tree-sha1 = "bdb1942cd4c45e3c678fd11569d5cccd80976237" uuid = "4e289a0a-7415-4d19-859d-a7e5c4648b56" version = "1.0.4" -[[deps.ErrorfreeArithmetic]] -git-tree-sha1 = "d6863c556f1142a061532e79f611aa46be201686" -uuid = "90fa49ef-747e-5e6f-a989-263ba693cf1a" -version = "0.5.2" - [[deps.ExactPredicates]] -deps = ["IntervalArithmetic", "Random", "StaticArraysCore"] -git-tree-sha1 = "499b1ca78f6180c8f8bdf1cabde2d39120229e5c" +deps = ["IntervalArithmetic", "Random", "StaticArrays"] +git-tree-sha1 = "b3f2ff58735b5f024c392fde763f29b057e4b025" uuid = "429591f6-91af-11e9-00e2-59fbe8cec110" -version = "2.2.6" +version = "2.2.8" [[deps.Expat_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -450,9 +444,9 @@ version = "1.8.0" [[deps.FFTW_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "c6033cc3892d0ef5bb9cd29b7f2f0331ea5184ea" +git-tree-sha1 = "4d81ed14783ec49ce9f2e168208a12ce1815aa25" uuid = "f5851436-0d7a-5f13-b9de-f02708fd171a" -version = "3.3.10+0" +version = "3.3.10+1" [[deps.FastRandPCA]] deps = ["KrylovKit", "LinearAlgebra", "Random", "SparseArrays"] @@ -460,17 +454,11 @@ git-tree-sha1 = "38c2266a16e66e446ece85eccda49044fd47998a" uuid = "cd768af4-c647-49d3-847e-9c96ab5a17a9" version = "0.2.1" -[[deps.FastRounding]] -deps = ["ErrorfreeArithmetic", "LinearAlgebra"] -git-tree-sha1 = "6344aa18f654196be82e62816935225b3b9abe44" -uuid = "fa42c844-2597-5d31-933b-ebd51ab2693f" -version = "0.3.1" - [[deps.FileIO]] deps = ["Pkg", "Requires", "UUIDs"] -git-tree-sha1 = "82d8afa92ecf4b52d78d869f038ebfb881267322" +git-tree-sha1 = "91e0e5c68d02bcdaae76d3c8ceb4361e8f28d2e9" uuid = "5789e2e9-d7fb-5bc7-8068-2c6fae9b9549" -version = "1.16.3" +version = "1.16.5" [[deps.FilePaths]] deps = ["FilePathsBase", "MacroTools", "Reexport", "Requires"] @@ -491,6 +479,7 @@ weakdeps = ["Mmap", "Test"] [[deps.FileWatching]] uuid = "7b1f6079-737a-58dc-b8bc-7a2ca5c1b5ee" +version = "1.11.0" [[deps.FillArrays]] deps = ["LinearAlgebra"] @@ -529,9 +518,9 @@ version = "1.3.7" [[deps.ForwardDiff]] deps = ["CommonSubexpressions", "DiffResults", "DiffRules", "LinearAlgebra", "LogExpFunctions", "NaNMath", "Preferences", "Printf", "Random", "SpecialFunctions"] -git-tree-sha1 = "cf0fe81336da9fb90944683b8c41984b08793dad" +git-tree-sha1 = "a2df1b776752e3f344e5116c06d75a10436ab853" uuid = "f6369f11-7733-5829-9624-2563aa707210" -version = "0.10.36" +version = "0.10.38" weakdeps = ["StaticArrays"] [deps.ForwardDiff.extensions] @@ -551,9 +540,9 @@ version = "2.13.2+0" [[deps.FreeTypeAbstraction]] deps = ["ColorVectorSpace", "Colors", "FreeType", "GeometryBasics"] -git-tree-sha1 = "2493cdfd0740015955a8e46de4ef28f49460d8bc" +git-tree-sha1 = "77e2b094e61d939f9626181ab23d0b76e78f9fd3" uuid = "663a7486-cb36-511b-a19d-713bb74d65c9" -version = "0.10.3" +version = "0.10.5" [[deps.FriBidi_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -564,6 +553,7 @@ version = "1.0.14+0" [[deps.Future]] deps = ["Random"] uuid = "9fa8497b-333b-5362-9e8d-4d0656e87820" +version = "1.11.0" [[deps.GPUArraysCore]] deps = ["Adapt"] @@ -578,9 +568,9 @@ version = "0.4.2" [[deps.GeoInterface]] deps = ["Extents", "GeoFormatTypes"] -git-tree-sha1 = "5921fc0704e40c024571eca551800c699f86ceb4" +git-tree-sha1 = "826b4fd69438d9ce4d2b19de6bc2f970f45f0f88" uuid = "cf35fbd7-0cd7-5166-be24-54bfbe79505f" -version = "1.3.6" +version = "1.3.8" [[deps.GeometricalPredicates]] git-tree-sha1 = "6c9f24b54b8bf2e3496b5b3c25f5a0aebacd95d5" @@ -613,15 +603,15 @@ 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 = "d18fb8a1f3609361ebda9bf029b60fd0f120c809" +git-tree-sha1 = "ea372033d09e4552a04fd38361cd019f9003f4f4" uuid = "f8c6e375-362e-5223-8a59-34ff63f689eb" -version = "2.44.0+2" +version = "2.46.2+0" [[deps.Glib_jll]] deps = ["Artifacts", "Gettext_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Libiconv_jll", "Libmount_jll", "PCRE2_jll", "Zlib_jll"] -git-tree-sha1 = "7c82e6a6cd34e9d935e9aa4051b66c6ff3af59ba" +git-tree-sha1 = "674ff0db93fffcd11a3573986e550d66cd4fd71f" uuid = "7746bdde-850d-59dc-9ae8-88ece973131d" -version = "2.80.2+0" +version = "2.80.5+0" [[deps.Glob]] git-tree-sha1 = "97285bbd5230dd766e9ef6749b80fc617126d496" @@ -630,9 +620,9 @@ version = "1.3.1" [[deps.Graphics]] deps = ["Colors", "LinearAlgebra", "NaNMath"] -git-tree-sha1 = "d61890399bc535850c4bf08e4e0d3a7ad0f21cbd" +git-tree-sha1 = "a641238db938fff9b2f60d08ed9030387daf428c" uuid = "a2bd30eb-e257-5431-a919-1863eab51364" -version = "1.1.2" +version = "1.1.3" [[deps.Graphite2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -642,9 +632,9 @@ version = "1.3.14+0" [[deps.Graphs]] deps = ["ArnoldiMethod", "Compat", "DataStructures", "Distributed", "Inflate", "LinearAlgebra", "Random", "SharedArrays", "SimpleTraits", "SparseArrays", "Statistics"] -git-tree-sha1 = "ebd18c326fa6cee1efb7da9a3b45cf69da2ed4d9" +git-tree-sha1 = "1dc470db8b1131cfc7fb4c115de89fe391b9e780" uuid = "86223c79-3864-5bf0-83f7-82e725a168b6" -version = "1.11.2" +version = "1.12.0" [[deps.GridLayoutBase]] deps = ["GeometryBasics", "InteractiveUtils", "Observables"] @@ -664,10 +654,10 @@ uuid = "f67ccb44-e63f-5c2f-98bd-6dc0ccc4ba2f" version = "0.16.16" [[deps.HDF5_jll]] -deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LazyArtifacts", "LibCURL_jll", "Libdl", "MPICH_jll", "MPIPreferences", "MPItrampoline_jll", "MicrosoftMPI_jll", "OpenMPI_jll", "OpenSSL_jll", "TOML", "Zlib_jll", "libaec_jll"] -git-tree-sha1 = "82a471768b513dc39e471540fdadc84ff80ff997" +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 = "1.14.3+3" +version = "1.14.2+1" [[deps.HarfBuzz_jll]] deps = ["Artifacts", "Cairo_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "Graphite2_jll", "JLLWrappers", "Libdl", "Libffi_jll"] @@ -677,15 +667,15 @@ version = "8.3.1+0" [[deps.Hwloc_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "5e19e1e4fa3e71b774ce746274364aef0234634e" +git-tree-sha1 = "50aedf345a709ab75872f80a2779568dc0bb461b" uuid = "e33a78d0-f292-5ffc-b300-72abe9b543c8" -version = "2.11.1+0" +version = "2.11.2+1" [[deps.HypergeometricFunctions]] deps = ["LinearAlgebra", "OpenLibm_jll", "SpecialFunctions"] -git-tree-sha1 = "7c4195be1649ae622304031ed46a2f4df989f1eb" +git-tree-sha1 = "b1c2585431c382e3fe5805874bda6aea90a95de9" uuid = "34004b35-14d8-5ef3-9330-4cdb6864b03a" -version = "0.3.24" +version = "0.3.25" [[deps.IOCapture]] deps = ["Logging", "Random"] @@ -718,16 +708,16 @@ uuid = "82e4d734-157c-48bb-816b-45c225c6df19" version = "0.6.8" [[deps.ImageMagick]] -deps = ["FileIO", "ImageCore", "ImageMagick_jll", "InteractiveUtils"] -git-tree-sha1 = "8e2eae13d144d545ef829324f1f0a5a4fe4340f3" +deps = ["FileIO", "ImageCore", "ImageMagick_jll", "InteractiveUtils", "Libdl", "Pkg", "Random"] +git-tree-sha1 = "5bc1cb62e0c5f1005868358db0692c994c3a13c6" uuid = "6218d12a-5da1-5696-b52f-db25d2ecc6d1" -version = "1.3.1" +version = "1.2.1" [[deps.ImageMagick_jll]] -deps = ["Artifacts", "Ghostscript_jll", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Libtiff_jll", "OpenJpeg_jll", "Pkg", "Zlib_jll", "libpng_jll"] -git-tree-sha1 = "8d2e786fd090199a91ecbf4a66d03aedd0fb24d4" +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 = "6.9.11+4" +version = "6.9.13+0" [[deps.ImageMetadata]] deps = ["AxisArrays", "ImageAxes", "ImageBase", "ImageCore"] @@ -779,6 +769,7 @@ version = "2024.2.1+0" [[deps.InteractiveUtils]] deps = ["Markdown"] uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240" +version = "1.11.0" [[deps.Interpolations]] deps = ["Adapt", "AxisAlgorithms", "ChainRulesCore", "LinearAlgebra", "OffsetArrays", "Random", "Ratios", "Requires", "SharedArrays", "SparseArrays", "StaticArrays", "WoodburyMatrices"] @@ -791,22 +782,38 @@ weakdeps = ["Unitful"] InterpolationsUnitfulExt = "Unitful" [[deps.IntervalArithmetic]] -deps = ["CRlibm", "EnumX", "FastRounding", "LinearAlgebra", "Markdown", "Random", "RecipesBase", "RoundingEmulator", "SetRounding", "StaticArrays"] -git-tree-sha1 = "f59e639916283c1d2e106d2b00910b50f4dab76c" +deps = ["CRlibm_jll", "LinearAlgebra", "MacroTools", "RoundingEmulator"] +git-tree-sha1 = "24c095b1ec7ee58b936985d31d5df92f9b9cfebb" uuid = "d1acc4aa-44c8-5952-acd4-ba5d80a2a253" -version = "0.21.2" +version = "0.22.19" + + [deps.IntervalArithmetic.extensions] + IntervalArithmeticDiffRulesExt = "DiffRules" + IntervalArithmeticForwardDiffExt = "ForwardDiff" + IntervalArithmeticIntervalSetsExt = "IntervalSets" + IntervalArithmeticRecipesBaseExt = "RecipesBase" + + [deps.IntervalArithmetic.weakdeps] + DiffRules = "b552c78f-8df3-52c6-915a-8e097449b14b" + ForwardDiff = "f6369f11-7733-5829-9624-2563aa707210" + IntervalSets = "8197267c-284f-5f27-9208-e0e47529a953" + RecipesBase = "3cdcf5f2-1ef4-517c-9805-6587b60abb01" [[deps.IntervalSets]] git-tree-sha1 = "dba9ddf07f77f60450fe5d2e2beb9854d9a49bd0" uuid = "8197267c-284f-5f27-9208-e0e47529a953" version = "0.7.10" -weakdeps = ["Random", "RecipesBase", "Statistics"] [deps.IntervalSets.extensions] IntervalSetsRandomExt = "Random" IntervalSetsRecipesBaseExt = "RecipesBase" IntervalSetsStatisticsExt = "Statistics" + [deps.IntervalSets.weakdeps] + Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c" + RecipesBase = "3cdcf5f2-1ef4-517c-9805-6587b60abb01" + Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2" + [[deps.InvertedIndices]] git-tree-sha1 = "0dc7b50b8d436461be01300fd8cd45aa0274b038" uuid = "41ab1584-1d38-5bbf-9106-f11c6c58b48f" @@ -835,9 +842,9 @@ version = "1.0.0" [[deps.JLLWrappers]] deps = ["Artifacts", "Preferences"] -git-tree-sha1 = "f389674c99bfcde17dc57454011aa44d5a260a40" +git-tree-sha1 = "be3dc50a92e5a386872a493a10050136d4703f9b" uuid = "692b3bcd-3c85-4b1f-b108-f13ce0eb3210" -version = "1.6.0" +version = "1.6.1" [[deps.JSON]] deps = ["Dates", "Mmap", "Parsers", "Unicode"] @@ -853,9 +860,9 @@ version = "0.1.5" [[deps.JpegTurbo_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "c84a835e1a09b289ffcd2271bf2a337bbdda6637" +git-tree-sha1 = "25ee0be4d43d0269027024d75a24c24d6c6e590c" uuid = "aacddb02-875f-59d6-b918-886e6ef4fbf8" -version = "3.0.3+0" +version = "3.0.4+0" [[deps.KernelDensity]] deps = ["Distributions", "DocStringExtensions", "FFTW", "Interpolations", "StatsBase"] @@ -876,36 +883,37 @@ uuid = "c1c5ebd0-6772-5130-a774-d5fcae4a789d" version = "3.100.2+0" [[deps.LERC_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "bf36f528eec6634efc60d7ec062008f171071434" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "36bdbc52f13a7d1dcb0f3cd694e01677a515655b" uuid = "88015f11-f218-50d7-93a8-a6af411a945d" -version = "3.0.0+1" +version = "4.0.0+0" [[deps.LLVMOpenMP_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "e16271d212accd09d52ee0ae98956b8a05c4b626" +git-tree-sha1 = "78211fb6cbc872f77cad3fc0b6cf647d923f4929" uuid = "1d63c593-3942-5779-bab2-d838dc0a180e" -version = "17.0.6+0" +version = "18.1.7+0" [[deps.LZO_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "70c5da094887fd2cae843b8db33920bac4b6f07d" +git-tree-sha1 = "854a9c268c43b77b0a27f22d7fab8d33cdb3a731" uuid = "dd4b983a-f0e5-5f8d-a1b7-129d4a5fb1ac" -version = "2.10.2+0" +version = "2.10.2+1" [[deps.LaTeXStrings]] -git-tree-sha1 = "50901ebc375ed41dbf8058da26f9de442febbbec" +git-tree-sha1 = "dda21b8cbd6a6c40d9d02a73230f9d70fed6918c" uuid = "b964fa9f-0449-5b57-a5c2-d3ea65f4040f" -version = "1.3.1" +version = "1.4.0" [[deps.LazilyInitializedFields]] -git-tree-sha1 = "8f7f3cabab0fd1800699663533b6d5cb3fc0e612" +git-tree-sha1 = "0f2da712350b020bc3957f269c9caad516383ee0" uuid = "0e77f7df-68c5-4e49-93ce-4cd80f5598bf" -version = "1.2.2" +version = "1.3.0" [[deps.LazyArtifacts]] deps = ["Artifacts", "Pkg"] uuid = "4af54fe1-eca0-43a8-85a7-787d91b784e3" +version = "1.11.0" [[deps.LazyModules]] git-tree-sha1 = "a560dd966b386ac9ae60bdd3a3d3a326062d3c3e" @@ -920,16 +928,17 @@ 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 = "8.4.0+0" +version = "8.6.0+0" [[deps.LibGit2]] deps = ["Base64", "LibGit2_jll", "NetworkOptions", "Printf", "SHA"] uuid = "76f85450-5226-5b5a-8eaa-529ad045b433" +version = "1.11.0" [[deps.LibGit2_jll]] deps = ["Artifacts", "LibSSH2_jll", "Libdl", "MbedTLS_jll"] uuid = "e37daf67-58a4-590a-8e99-b0245dd2ffc5" -version = "1.6.4+0" +version = "1.7.2+0" [[deps.LibSSH2_jll]] deps = ["Artifacts", "Libdl", "MbedTLS_jll"] @@ -938,6 +947,7 @@ version = "1.11.0+1" [[deps.Libdl]] uuid = "8f399da3-3557-5675-b5ff-fb832c97cbdb" +version = "1.11.0" [[deps.Libffi_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -947,21 +957,21 @@ version = "3.2.2+1" [[deps.Libgcrypt_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgpg_error_jll"] -git-tree-sha1 = "9fd170c4bbfd8b935fdc5f8b7aa33532c991a673" +git-tree-sha1 = "8be878062e0ffa2c3f67bb58a595375eda5de80b" uuid = "d4300ac3-e22c-5743-9152-c294e39db1e4" -version = "1.8.11+0" +version = "1.11.0+0" [[deps.Libgpg_error_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "fbb1f2bef882392312feb1ede3615ddc1e9b99ed" +git-tree-sha1 = "c6ce1e19f3aec9b59186bdf06cdf3c4fc5f5f3e6" uuid = "7add5ba3-2f88-524e-9cd5-f83b8a55f7b8" -version = "1.49.0+0" +version = "1.50.0+0" [[deps.Libiconv_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "f9557a255370125b405568f9767d6d195822a175" +git-tree-sha1 = "61dfdba58e585066d8bce214c5a51eaa0539f269" uuid = "94ce4f54-9a6c-5748-9c1c-f9c7231a4531" -version = "1.17.0+0" +version = "1.17.0+1" [[deps.Libmount_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -970,10 +980,10 @@ uuid = "4b2f31a3-9ecc-558c-b454-b3730dcb73e9" version = "2.40.1+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 = "b404131d06f7886402758c9ce2214b636eb4d54a" uuid = "89763e89-9b03-5906-acba-b20f662cd828" -version = "4.4.0+0" +version = "4.7.0+0" [[deps.Libuuid_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -984,12 +994,13 @@ version = "2.40.1+0" [[deps.LinearAlgebra]] deps = ["Libdl", "OpenBLAS_jll", "libblastrampoline_jll"] uuid = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e" +version = "1.11.0" [[deps.LittleCMS_jll]] -deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Libtiff_jll", "Pkg"] -git-tree-sha1 = "110897e7db2d6836be22c18bffd9422218ee6284" +deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Libtiff_jll"] +git-tree-sha1 = "fa7fd067dca76cadd880f1ca937b4f387975a9f5" uuid = "d3a379c0-f9a3-5b72-a4c0-6bf4d2e8af0f" -version = "2.12.0+0" +version = "2.16.0+0" [[deps.LittleEndianBase128]] deps = ["Test"] @@ -1015,6 +1026,7 @@ version = "0.3.28" [[deps.Logging]] uuid = "56ddb016-857b-54e1-b83d-db4d58db5568" +version = "1.11.0" [[deps.LsqFit]] deps = ["Distributions", "ForwardDiff", "LinearAlgebra", "NLSolversBase", "Printf", "StatsAPI"] @@ -1024,9 +1036,9 @@ version = "0.15.0" [[deps.Lz4_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "7f26c8fc5229e68484e0b3447312c98e16207d11" +git-tree-sha1 = "abf88ff67f4fd89839efcae2f4c39cbc4ecd0846" uuid = "5ced341a-0733-55b8-9ab6-a4889d929147" -version = "1.10.0+0" +version = "1.10.0+1" [[deps.MAT]] deps = ["BufferedStreams", "CodecZlib", "HDF5", "SparseArrays"] @@ -1042,9 +1054,9 @@ version = "2024.2.0+0" [[deps.MPICH_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "Hwloc_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML"] -git-tree-sha1 = "19d4bd098928a3263693991500d05d74dbdc2004" +git-tree-sha1 = "7715e65c47ba3941c502bffb7f266a41a7f54423" uuid = "7cb0a576-ebde-5e09-9194-50597f1243b4" -version = "4.2.2+0" +version = "4.2.3+0" [[deps.MPIPreferences]] deps = ["Libdl", "Preferences"] @@ -1054,9 +1066,9 @@ version = "0.1.11" [[deps.MPItrampoline_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML"] -git-tree-sha1 = "8c35d5420193841b2f367e658540e8d9e0601ed0" +git-tree-sha1 = "70e830dab5d0775183c99fc75e4c24c614ed7142" uuid = "f1f71cc9-e9ae-5b93-9b94-4fe0e1ad3748" -version = "5.4.0+0" +version = "5.5.1+0" [[deps.MacroTools]] deps = ["Markdown", "Random"] @@ -1084,6 +1096,7 @@ version = "0.4.2" [[deps.Markdown]] deps = ["Base64"] uuid = "d6f4376e-aef5-505a-96c1-9c027394607a" +version = "1.11.0" [[deps.MarkdownAST]] deps = ["AbstractTrees", "Markdown"] @@ -1093,14 +1106,14 @@ version = "0.1.2" [[deps.MathTeXEngine]] deps = ["AbstractTrees", "Automa", "DataStructures", "FreeTypeAbstraction", "GeometryBasics", "LaTeXStrings", "REPL", "RelocatableFolders", "UnicodeFun"] -git-tree-sha1 = "e1641f32ae592e415e3dbae7f4a188b5316d4b62" +git-tree-sha1 = "f45c8916e8385976e1ccd055c9874560c257ab13" uuid = "0a4f8689-d25c-4efe-a92b-7142dfc1aa53" -version = "0.6.1" +version = "0.6.2" [[deps.MbedTLS_jll]] deps = ["Artifacts", "Libdl"] uuid = "c8ffd9c3-330d-5841-b78e-0817d7145fa1" -version = "2.28.2+1" +version = "2.28.6+0" [[deps.MicrosoftMPI_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1116,6 +1129,7 @@ version = "1.2.0" [[deps.Mmap]] uuid = "a63ad114-7e13-5084-954f-fe012c677804" +version = "1.11.0" [[deps.MosaicViews]] deps = ["MappedArrays", "OffsetArrays", "PaddedViews", "StackViews"] @@ -1125,7 +1139,7 @@ version = "0.3.4" [[deps.MozillaCACerts_jll]] uuid = "14a3606d-f60d-562e-9121-12d972cd8159" -version = "2023.1.10" +version = "2023.12.12" [[deps.MultilineStrings]] git-tree-sha1 = "3214216b069fb1bc329f55094681e06b64a51022" @@ -1158,9 +1172,9 @@ version = "0.3.6" [[deps.NearestNeighbors]] deps = ["Distances", "StaticArrays"] -git-tree-sha1 = "91a67b4d73842da90b526011fa85c5c4c9343fe0" +git-tree-sha1 = "8a3271d8309285f4db73b4f662b1b290c715e85e" uuid = "b8a86587-4115-5ab1-83bc-aa920d37bbce" -version = "0.4.18" +version = "0.4.21" [[deps.Netpbm]] deps = ["FileIO", "ImageCore", "ImageMetadata"] @@ -1201,13 +1215,13 @@ version = "1.3.5+1" [[deps.OpenBLAS_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "Libdl"] uuid = "4536629a-c528-5b80-bd46-f80d51c5b363" -version = "0.3.23+4" +version = "0.3.27+1" [[deps.OpenEXR]] deps = ["Colors", "FileIO", "OpenEXR_jll"] -git-tree-sha1 = "327f53360fdb54df7ecd01e96ef1983536d1e633" +git-tree-sha1 = "97db9e07fe2091882c765380ef58ec553074e9c7" uuid = "52e1d378-f018-4a11-a4be-720524705ac7" -version = "0.3.2" +version = "0.3.3" [[deps.OpenEXR_jll]] deps = ["Artifacts", "Imath_jll", "JLLWrappers", "Libdl", "Zlib_jll"] @@ -1216,10 +1230,10 @@ uuid = "18a262bb-aa17-5467-a713-aee519bc75cb" version = "3.2.4+0" [[deps.OpenJpeg_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Libtiff_jll", "LittleCMS_jll", "Pkg", "libpng_jll"] -git-tree-sha1 = "76374b6e7f632c130e78100b166e5a48464256f8" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Libtiff_jll", "LittleCMS_jll", "libpng_jll"] +git-tree-sha1 = "f4cb457ffac5f5cf695699f82c537073958a6a6c" uuid = "643b3616-a352-519d-856d-80112ee9badc" -version = "2.4.0+0" +version = "2.5.2+0" [[deps.OpenLibm_jll]] deps = ["Artifacts", "Libdl"] @@ -1227,16 +1241,16 @@ uuid = "05823500-19ac-5b8b-9628-191a04bc5112" version = "0.8.1+2" [[deps.OpenMPI_jll]] -deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML"] -git-tree-sha1 = "e25c1778a98e34219a00455d6e4384e017ea9762" +deps = ["Artifacts", "CompilerSupportLibraries_jll", "Hwloc_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML", "Zlib_jll"] +git-tree-sha1 = "bfce6d523861a6c562721b262c0d1aaeead2647f" uuid = "fe0851c0-eecd-5654-98d4-656369965a5c" -version = "4.1.6+0" +version = "5.0.5+0" [[deps.OpenSSL_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "1b35263570443fdd9e76c76b7062116e2f374ab8" +git-tree-sha1 = "7493f61f55a6cce7325f197443aa80d32554ba10" uuid = "458c3c95-2e84-50aa-8efc-19380b2a3a95" -version = "3.0.15+0" +version = "3.0.15+1" [[deps.OpenSpecFun_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "Libdl", "Pkg"] @@ -1274,9 +1288,9 @@ version = "0.4.3" [[deps.PackageCompiler]] deps = ["Artifacts", "Glob", "LazyArtifacts", "Libdl", "Pkg", "Printf", "RelocatableFolders", "TOML", "UUIDs", "p7zip_jll"] -git-tree-sha1 = "48d4429862157ad5500c4f61444db1b8c32e0a2b" +git-tree-sha1 = "cc6b349a4189664462469ecfc27b27c369b0c645" uuid = "9b87118b-4619-50d2-8e1e-99f35a4d4d9d" -version = "2.1.17" +version = "2.1.22" [[deps.Packing]] deps = ["GeometryBasics"] @@ -1320,9 +1334,13 @@ uuid = "30392449-352a-5448-841d-b1acce4e97dc" version = "0.43.4+0" [[deps.Pkg]] -deps = ["Artifacts", "Dates", "Downloads", "FileWatching", "LibGit2", "Libdl", "Logging", "Markdown", "Printf", "REPL", "Random", "SHA", "Serialization", "TOML", "Tar", "UUIDs", "p7zip_jll"] +deps = ["Artifacts", "Dates", "Downloads", "FileWatching", "LibGit2", "Libdl", "Logging", "Markdown", "Printf", "Random", "SHA", "TOML", "Tar", "UUIDs", "p7zip_jll"] uuid = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f" -version = "1.10.0" +version = "1.11.0" +weakdeps = ["REPL"] + + [deps.Pkg.extensions] + REPLExt = "REPL" [[deps.PkgVersion]] deps = ["Pkg"] @@ -1331,10 +1349,10 @@ uuid = "eebad327-c553-4316-9ea0-9fa01ccd7688" version = "0.3.3" [[deps.PlotUtils]] -deps = ["ColorSchemes", "Colors", "Dates", "PrecompileTools", "Printf", "Random", "Reexport", "Statistics"] -git-tree-sha1 = "7b1a9df27f072ac4c9c7cbe5efb198489258d1f5" +deps = ["ColorSchemes", "Colors", "Dates", "PrecompileTools", "Printf", "Random", "Reexport", "StableRNGs", "Statistics"] +git-tree-sha1 = "3ca9a356cd2e113c420f2c13bea19f8d3fb1cb18" uuid = "995b91a9-d308-5afd-9ec6-746e21dbc043" -version = "1.4.1" +version = "1.4.3" [[deps.PolygonOps]] git-tree-sha1 = "77b3d3605fc1cd0b42d95eba87dfcd2bf67d5ff6" @@ -1361,19 +1379,20 @@ version = "1.4.3" [[deps.PrettyTables]] deps = ["Crayons", "LaTeXStrings", "Markdown", "PrecompileTools", "Printf", "Reexport", "StringManipulation", "Tables"] -git-tree-sha1 = "66b20dd35966a748321d3b2537c4584cf40387c7" +git-tree-sha1 = "1101cd475833706e4d0e7b122218257178f48f34" uuid = "08abe8d2-0d0c-5749-adfa-8a2ac140af0d" -version = "2.3.2" +version = "2.4.0" [[deps.Printf]] deps = ["Unicode"] uuid = "de0858da-6303-5e67-8744-51eddeeeb8d7" +version = "1.11.0" [[deps.ProgressMeter]] deps = ["Distributed", "Printf"] -git-tree-sha1 = "d7a7aef8f8f2d537104f170139553b14dfe39fe9" +git-tree-sha1 = "8f6bc219586aef8baf0ff9a5fe16ee9c70cb65e4" uuid = "92933f4c-e287-5a05-a399-4b506db050ca" -version = "1.7.2" +version = "1.10.2" [[deps.PtrArrays]] git-tree-sha1 = "77a42d78b6a92df47ab37e177b2deac405e1c88f" @@ -1382,15 +1401,15 @@ version = "1.2.1" [[deps.QOI]] deps = ["ColorTypes", "FileIO", "FixedPointNumbers"] -git-tree-sha1 = "18e8f4d1426e965c7b532ddd260599e1510d26ce" +git-tree-sha1 = "8b3fc30bc0390abdce15f8822c889f669baed73d" uuid = "4b34888f-f399-49d4-9bb3-47ed5cae4e65" -version = "1.0.0" +version = "1.0.1" [[deps.QuadGK]] deps = ["DataStructures", "LinearAlgebra"] -git-tree-sha1 = "1d587203cf851a51bf1ea31ad7ff89eff8d625ea" +git-tree-sha1 = "cda3b045cf9ef07a08ad46731f5a3165e56cf3da" uuid = "1fd47b50-473d-5c70-9696-f719f8f3bcdc" -version = "2.11.0" +version = "2.11.1" [deps.QuadGK.extensions] QuadGKEnzymeExt = "Enzyme" @@ -1399,12 +1418,14 @@ version = "2.11.0" Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9" [[deps.REPL]] -deps = ["InteractiveUtils", "Markdown", "Sockets", "Unicode"] +deps = ["InteractiveUtils", "Markdown", "Sockets", "StyledStrings", "Unicode"] uuid = "3fa0cd96-eef1-5676-8a61-b3b8758bbffb" +version = "1.11.0" [[deps.Random]] deps = ["SHA"] uuid = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c" +version = "1.11.0" [[deps.RangeArrays]] git-tree-sha1 = "b9039e93773ddcfc828f12aadf7115b4b4d225f5" @@ -1421,12 +1442,6 @@ weakdeps = ["FixedPointNumbers"] [deps.Ratios.extensions] RatiosFixedPointNumbersExt = "FixedPointNumbers" -[[deps.RecipesBase]] -deps = ["PrecompileTools"] -git-tree-sha1 = "5c3d09cc4f31f5fc6af001c250bf1278733100ff" -uuid = "3cdcf5f2-1ef4-517c-9805-6587b60abb01" -version = "1.3.4" - [[deps.Reexport]] git-tree-sha1 = "45e428421666073eab6f2da5c9d310d99bb12f9b" uuid = "189a3867-3050-52da-a836-e630ba90ab69" @@ -1452,15 +1467,15 @@ version = "1.3.0" [[deps.Rmath]] deps = ["Random", "Rmath_jll"] -git-tree-sha1 = "f65dcb5fa46aee0cf9ed6274ccbd597adc49aa7b" +git-tree-sha1 = "852bd0f55565a9e973fcfee83a84413270224dc4" uuid = "79098fc4-a85e-5d69-aa6a-4863f24498fa" -version = "0.7.1" +version = "0.8.0" [[deps.Rmath_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "e60724fd3beea548353984dc61c943ecddb0e29a" +git-tree-sha1 = "58cdd8fb2201a6267e1db87ff148dd6c1dbd8ad8" uuid = "f50d1b31-88e8-58de-be2c-1cc44531875f" -version = "0.4.3+0" +version = "0.5.1+0" [[deps.RoundingEmulator]] git-tree-sha1 = "40b9edad2e5287e05bd413a38f61a8ff55b9557b" @@ -1473,9 +1488,9 @@ version = "0.7.0" [[deps.SIMD]] deps = ["PrecompileTools"] -git-tree-sha1 = "2803cab51702db743f3fda07dd1745aadfbf43bd" +git-tree-sha1 = "52af86e35dd1b177d051b12681e1c581f53c281b" uuid = "fdea26ae-647d-5447-a871-4b548cad5224" -version = "3.5.0" +version = "3.7.0" [[deps.Scratch]] deps = ["Dates"] @@ -1485,17 +1500,13 @@ version = "1.2.1" [[deps.SentinelArrays]] deps = ["Dates", "Random"] -git-tree-sha1 = "ff11acffdb082493657550959d4feb4b6149e73a" +git-tree-sha1 = "d0553ce4031a081cc42387a9b9c8441b7d99f32d" uuid = "91c51154-3ec4-41a3-a24f-3f23e20d615c" -version = "1.4.5" +version = "1.4.7" [[deps.Serialization]] uuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b" - -[[deps.SetRounding]] -git-tree-sha1 = "d7a25e439d07a17b7cdf97eecee504c50fedf5f6" -uuid = "3cc68bcd-71a2-5612-b932-767ffbe40ab0" -version = "0.2.1" +version = "1.11.0" [[deps.Setfield]] deps = ["ConstructionBase", "Future", "MacroTools", "StaticArraysCore"] @@ -1512,6 +1523,7 @@ version = "0.4.1" [[deps.SharedArrays]] deps = ["Distributed", "Mmap", "Random", "Serialization"] uuid = "1a1011a3-84de-559e-8e89-a11a2f7dc383" +version = "1.11.0" [[deps.Showoff]] deps = ["Dates", "Grisu"] @@ -1551,6 +1563,7 @@ version = "1.0.3" [[deps.Sockets]] uuid = "6462fe0b-24de-5631-8697-dd941f90decc" +version = "1.11.0" [[deps.SortingAlgorithms]] deps = ["DataStructures"] @@ -1561,7 +1574,7 @@ version = "1.2.1" [[deps.SparseArrays]] deps = ["Libdl", "LinearAlgebra", "Random", "Serialization", "SuiteSparse_jll"] uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" -version = "1.10.0" +version = "1.11.0" [[deps.SpecialFunctions]] deps = ["IrrationalConstants", "LogExpFunctions", "OpenLibm_jll", "OpenSpecFun_jll"] @@ -1573,6 +1586,12 @@ weakdeps = ["ChainRulesCore"] [deps.SpecialFunctions.extensions] SpecialFunctionsChainRulesCoreExt = "ChainRulesCore" +[[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" @@ -1580,10 +1599,15 @@ uuid = "cae243ae-269e-4f55-b966-ac2d0dc13c15" version = "0.1.1" [[deps.StaticArrays]] -deps = ["LinearAlgebra", "Random", "StaticArraysCore", "Statistics"] -git-tree-sha1 = "832afbae2a45b4ae7e831f86965469a24d1d8a83" +deps = ["LinearAlgebra", "PrecompileTools", "Random", "StaticArraysCore"] +git-tree-sha1 = "777657803913ffc7e8cc20f0fd04b634f871af8f" uuid = "90137ffa-7385-5640-81b9-e52037218182" -version = "1.5.26" +version = "1.9.8" +weakdeps = ["ChainRulesCore", "Statistics"] + + [deps.StaticArrays.extensions] + StaticArraysChainRulesCoreExt = "ChainRulesCore" + StaticArraysStatisticsExt = "Statistics" [[deps.StaticArraysCore]] git-tree-sha1 = "192954ef1208c7019899fbf8049e717f92959682" @@ -1591,9 +1615,14 @@ uuid = "1e83bf80-4336-4d27-bf5d-d5a4f845583c" version = "1.4.3" [[deps.Statistics]] -deps = ["LinearAlgebra", "SparseArrays"] +deps = ["LinearAlgebra"] +git-tree-sha1 = "ae3bb1eb3bba077cd276bc5cfc337cc65c3075c0" uuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2" -version = "1.10.0" +version = "1.11.1" +weakdeps = ["SparseArrays"] + + [deps.Statistics.extensions] + SparseArraysExt = ["SparseArrays"] [[deps.StatsAPI]] deps = ["LinearAlgebra"] @@ -1609,9 +1638,9 @@ version = "0.34.3" [[deps.StatsFuns]] deps = ["HypergeometricFunctions", "IrrationalConstants", "LogExpFunctions", "Reexport", "Rmath", "SpecialFunctions"] -git-tree-sha1 = "cef0472124fab0695b58ca35a77c6fb942fdab8a" +git-tree-sha1 = "b423576adc27097764a90e163157bcfc9acf0f46" uuid = "4c63d2b9-4356-54db-8cca-17b64c39e42c" -version = "1.3.1" +version = "1.3.2" [deps.StatsFuns.extensions] StatsFunsChainRulesCoreExt = "ChainRulesCore" @@ -1623,9 +1652,9 @@ version = "1.3.1" [[deps.StringManipulation]] deps = ["PrecompileTools"] -git-tree-sha1 = "a04cabe79c5f01f4d723cc6704070ada0b9d46d5" +git-tree-sha1 = "a6b1675a536c5ad1a60e5a5153e1fee12eb146e3" uuid = "892a3eda-7b42-436c-8928-eab12a02cf0e" -version = "0.3.4" +version = "0.4.0" [[deps.StructArrays]] deps = ["ConstructionBase", "DataAPI", "Tables"] @@ -1640,6 +1669,10 @@ weakdeps = ["Adapt", "GPUArraysCore", "SparseArrays", "StaticArrays"] StructArraysSparseArraysExt = "SparseArrays" StructArraysStaticArraysExt = "StaticArrays" +[[deps.StyledStrings]] +uuid = "f489334b-da3d-4c2e-b8f0-e476e12c162b" +version = "1.11.0" + [[deps.SuiteSparse]] deps = ["Libdl", "LinearAlgebra", "Serialization", "SparseArrays"] uuid = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9" @@ -1647,7 +1680,7 @@ uuid = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9" [[deps.SuiteSparse_jll]] deps = ["Artifacts", "Libdl", "libblastrampoline_jll"] uuid = "bea87d4a-7f5b-5778-9afe-8cc45184846c" -version = "7.2.1+1" +version = "7.7.0+0" [[deps.TOML]] deps = ["Dates"] @@ -1680,6 +1713,7 @@ version = "0.1.1" [[deps.Test]] deps = ["InteractiveUtils", "Logging", "Random", "Serialization"] uuid = "8dfed614-e22c-5e08-85e1-65c5234f0b40" +version = "1.11.0" [[deps.Thrift]] deps = ["CodecZlib", "CodecZstd", "Distributed", "Sockets", "ThriftJuliaCompiler_jll", "TranscodingStreams"] @@ -1695,9 +1729,9 @@ version = "0.12.1+0" [[deps.TiffImages]] deps = ["ColorTypes", "DataStructures", "DocStringExtensions", "FileIO", "FixedPointNumbers", "IndirectArrays", "Inflate", "Mmap", "OffsetArrays", "PkgVersion", "ProgressMeter", "SIMD", "UUIDs"] -git-tree-sha1 = "bc7fd5c91041f44636b2c134041f7e5263ce58ae" +git-tree-sha1 = "38f139cc4abf345dd4f22286ec000728d5e8e097" uuid = "731e570b-9d59-4bfa-96dc-6df516fadf69" -version = "0.10.0" +version = "0.10.2" [[deps.TiledIteration]] deps = ["OffsetArrays"] @@ -1706,9 +1740,9 @@ uuid = "06e1c1a7-607b-532d-9fad-de7d9aa2abac" version = "0.3.1" [[deps.TranscodingStreams]] -git-tree-sha1 = "e84b3a11b9bece70d14cce63406bbc79ed3464d2" +git-tree-sha1 = "0c45878dcfdcfa8480052b6ab162cdd138781742" uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa" -version = "0.11.2" +version = "0.11.3" [[deps.TriplotBase]] git-tree-sha1 = "4d4ed7f294cda19382ff7de4c137d24d16adc89b" @@ -1724,9 +1758,11 @@ version = "0.1.11" [[deps.UUIDs]] deps = ["Random", "SHA"] uuid = "cf7118a7-6976-5b1a-9a39-7adc72f591a4" +version = "1.11.0" [[deps.Unicode]] uuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5" +version = "1.11.0" [[deps.UnicodeFun]] deps = ["REPL"] @@ -1773,9 +1809,9 @@ version = "1.6.1" [[deps.XML2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libiconv_jll", "Zlib_jll"] -git-tree-sha1 = "1165b0443d0eca63ac1e32b8c0eb69ed2f4f8127" +git-tree-sha1 = "6a451c6f33a176150f315726eba8b92fbfdb9ae7" uuid = "02c8fc9c-b97f-50b9-bbe4-9be30ff0a78a" -version = "2.13.3+0" +version = "2.13.4+0" [[deps.XSLT_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgcrypt_jll", "Libgpg_error_jll", "Libiconv_jll", "XML2_jll", "Zlib_jll"] @@ -1783,6 +1819,12 @@ git-tree-sha1 = "a54ee957f4c86b526460a720dbc882fa5edcbefc" uuid = "aed1982a-8fda-507f-9586-7b0439959a61" version = "1.1.41+0" +[[deps.XZ_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "15e637a697345f6743674f1322beefbc5dcd5cfc" +uuid = "ffd25f8a-64ca-5728-b0f7-c24cf3aae800" +version = "5.6.3+0" + [[deps.Xorg_libX11_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libxcb_jll", "Xorg_xtrans_jll"] git-tree-sha1 = "afead5aba5aa507ad5a3bf01f58f82c8d1403495" @@ -1838,9 +1880,9 @@ version = "1.2.13+1" [[deps.Zstd_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "e678132f07ddb5bfa46857f0d7620fb9be675d3b" +git-tree-sha1 = "555d1076590a6cc2fdee2ef1469451f872d8b41b" uuid = "3161d3a3-bdf6-5164-811a-617609db77b4" -version = "1.5.6+0" +version = "1.5.6+1" [[deps.isoband_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1879,15 +1921,15 @@ version = "2.0.3+0" [[deps.libpng_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Zlib_jll"] -git-tree-sha1 = "d7015d2e18a5fd9a4f47de711837e980519781a4" +git-tree-sha1 = "b70c870239dc3d7bc094eb2d6be9b73d27bef280" uuid = "b53b4c65-9356-5827-b1ea-8c7a1a84506f" -version = "1.6.43+1" +version = "1.6.44+0" [[deps.libsixel_jll]] deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Pkg", "libpng_jll"] -git-tree-sha1 = "d4f63314c8aa1e48cd22aa0c17ed76cd1ae48c3c" +git-tree-sha1 = "7dfa0fd9c783d3d0cc43ea1af53d69ba45c447df" uuid = "075b6546-f08a-558a-be8f-8157d0f608a5" -version = "1.10.3+0" +version = "1.10.3+1" [[deps.libvorbis_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Ogg_jll", "Pkg"] @@ -1898,7 +1940,7 @@ version = "1.3.7+2" [[deps.nghttp2_jll]] deps = ["Artifacts", "Libdl"] uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d" -version = "1.52.0+1" +version = "1.59.0+0" [[deps.oneTBB_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -1913,9 +1955,9 @@ version = "17.4.0+2" [[deps.snappy_jll]] deps = ["Artifacts", "JLLWrappers", "LZO_jll", "Libdl", "Lz4_jll", "Zlib_jll"] -git-tree-sha1 = "8bc7ddafc0a7339b82a06c1dde849cd5039324d6" +git-tree-sha1 = "d34e37153e4c03205bde2f0f8ada6cced8c83978" uuid = "fe1e1685-f7be-5f59-ac9f-4ca204017dfd" -version = "1.2.0+0" +version = "1.2.1+0" [[deps.x264_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] diff --git a/docs/src/assets/logo.png b/docs/src/assets/logo.png new file mode 100644 index 0000000..9aa3e06 Binary files /dev/null and b/docs/src/assets/logo.png differ diff --git a/docs/src/installation.md b/docs/src/installation.md index 53fb30b..48c189a 100644 --- a/docs/src/installation.md +++ b/docs/src/installation.md @@ -15,6 +15,15 @@ The easiest way to install Baysor on Linux is to download a binary from the [rel If you need to install julia, [`juliaup`](https://github.com/julialang/juliaup#installation) is a recommended way. It's cross-platform and doesn't require admin privileges. *TL;DR: `curl -fsSL https://install.julialang.org | sh`* . +**The current version of Baysor isn't compatible with Julia 1.11.** + +To install Julia 1.10, use the following command: + +```bash +juliaup add 1.10 +juliaup default 1.10 +``` + To install Baysor as a Julia package run the following command from your CLI *(it requires `gcc` or `clang` installed)*: ```bash