From f10ea54bc98571ec509201e863d789373f30d335 Mon Sep 17 00:00:00 2001 From: arzwa Date: Mon, 12 Sep 2022 18:33:46 +0200 Subject: [PATCH] added Turing to docs --- docs/Manifest.toml | 341 +++++++++++++++++++++++++++++++++++++++++++-- docs/Project.toml | 1 + 2 files changed, 333 insertions(+), 9 deletions(-) diff --git a/docs/Manifest.toml b/docs/Manifest.toml index 1057c57..fdf7125 100644 --- a/docs/Manifest.toml +++ b/docs/Manifest.toml @@ -2,7 +2,7 @@ julia_version = "1.8.0" manifest_format = "2.0" -project_hash = "28107fbe1c7b430e0952c758fe635c3a992ca860" +project_hash = "4dd92fb28947446a89900a1aa4be964348dc1c57" [[deps.ANSIColoredPrinters]] git-tree-sha1 = "574baf8110975760d391c710b6341da1afa48d8c" @@ -15,6 +15,18 @@ git-tree-sha1 = "69f7020bd72f069c219b5e8c236c1fa90d2cb409" uuid = "621f4979-c628-5d54-868e-fcf4e3e8185c" version = "1.2.1" +[[deps.AbstractMCMC]] +deps = ["BangBang", "ConsoleProgressMonitor", "Distributed", "Logging", "LoggingExtras", "ProgressLogging", "Random", "StatsBase", "TerminalLoggers", "Transducers"] +git-tree-sha1 = "5c26c7759412ffcaf0dd6e3172e55d783dd7610b" +uuid = "80f14c24-f653-4e6a-9b94-39d6b0f70001" +version = "4.1.3" + +[[deps.AbstractPPL]] +deps = ["AbstractMCMC", "DensityInterface", "Setfield", "SparseArrays"] +git-tree-sha1 = "6320752437e9fbf49639a410017d862ad64415a5" +uuid = "7a57a42e-76ec-4ea3-a279-07e840d6d9cf" +version = "0.5.2" + [[deps.AbstractTrees]] git-tree-sha1 = "03e0550477d86222521d254b741d470ba17ea0b5" uuid = "1520ce14-60c1-5f80-bbc7-55ef81b5835c" @@ -26,6 +38,35 @@ git-tree-sha1 = "195c5505521008abea5aee4f96930717958eac6f" uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e" version = "3.4.0" +[[deps.AdvancedHMC]] +deps = ["AbstractMCMC", "ArgCheck", "DocStringExtensions", "InplaceOps", "LinearAlgebra", "ProgressMeter", "Random", "Requires", "Setfield", "Statistics", "StatsBase", "StatsFuns", "UnPack"] +git-tree-sha1 = "0091e2e4d0a7125da0e3ad8c7dbff9171a921461" +uuid = "0bf59076-c3b1-5ca4-86bd-e02cd72cde3d" +version = "0.3.6" + +[[deps.AdvancedMH]] +deps = ["AbstractMCMC", "Distributions", "Random", "Requires"] +git-tree-sha1 = "d7a7dabeaef34e5106cdf6c2ac956e9e3f97f666" +uuid = "5b7e9947-ddc0-4b3f-9b55-0d8042f74170" +version = "0.6.8" + +[[deps.AdvancedPS]] +deps = ["AbstractMCMC", "Distributions", "Libtask", "Random", "StatsFuns"] +git-tree-sha1 = "9ff1247be1e2aa2e740e84e8c18652bd9d55df22" +uuid = "576499cb-2369-40b2-a588-c64705576edc" +version = "0.3.8" + +[[deps.AdvancedVI]] +deps = ["Bijectors", "Distributions", "DistributionsAD", "DocStringExtensions", "ForwardDiff", "LinearAlgebra", "ProgressMeter", "Random", "Requires", "StatsBase", "StatsFuns", "Tracker"] +git-tree-sha1 = "e743af305716a527cdb3a67b31a33a7c3832c41f" +uuid = "b5ca4192-6429-45e5-a2d9-87aec30a685c" +version = "0.1.5" + +[[deps.ArgCheck]] +git-tree-sha1 = "a3a402a35a2f7e0b87828ccabbd5ebfbebe356b4" +uuid = "dce04be8-c92d-5529-be00-80e4d2c0e197" +version = "2.3.0" + [[deps.ArgTools]] uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f" version = "1.1.1" @@ -48,6 +89,12 @@ git-tree-sha1 = "5bb0f8292405a516880a3809954cb832ae7a31c5" uuid = "30b0a656-2188-435a-8636-2ec0e6a096e2" version = "0.1.20" +[[deps.ArrayInterfaceStaticArraysCore]] +deps = ["Adapt", "ArrayInterfaceCore", "LinearAlgebra", "StaticArraysCore"] +git-tree-sha1 = "a1e2cf6ced6505cbad2490532388683f1e88c3ed" +uuid = "dd5226c6-a4d4-4bc7-8575-46859f9c95b9" +version = "0.1.0" + [[deps.Artifacts]] uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33" @@ -57,9 +104,32 @@ git-tree-sha1 = "66771c8d21c8ff5e3a93379480a2307ac36863f7" uuid = "13072b0f-2c55-5437-9ae7-d433b7a33950" version = "1.0.1" +[[deps.AxisArrays]] +deps = ["Dates", "IntervalSets", "IterTools", "RangeArrays"] +git-tree-sha1 = "1dd4d9f5beebac0c03446918741b1a03dc5e5788" +uuid = "39de3d68-74b9-583c-8d2d-e117c070f3a9" +version = "0.4.6" + +[[deps.BangBang]] +deps = ["Compat", "ConstructionBase", "Future", "InitialValues", "LinearAlgebra", "Requires", "Setfield", "Tables", "ZygoteRules"] +git-tree-sha1 = "b15a6bc52594f5e4a3b825858d1089618871bf9d" +uuid = "198e06fe-97b7-11e9-32a5-e1d131e6ad66" +version = "0.3.36" + [[deps.Base64]] uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f" +[[deps.Baselet]] +git-tree-sha1 = "aebf55e6d7795e02ca500a689d326ac979aaf89e" +uuid = "9718e550-a3fa-408a-8086-8db961cd8217" +version = "0.1.1" + +[[deps.Bijectors]] +deps = ["ArgCheck", "ChainRulesCore", "ChangesOfVariables", "Compat", "Distributions", "Functors", "InverseFunctions", "IrrationalConstants", "LinearAlgebra", "LogExpFunctions", "MappedArrays", "Random", "Reexport", "Requires", "Roots", "SparseArrays", "Statistics"] +git-tree-sha1 = "a3704b8e5170f9339dff4e6cb286ad49464d3646" +uuid = "76274a88-744f-5084-9051-94815aaf08c4" +version = "0.10.6" + [[deps.Bzip2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] git-tree-sha1 = "19a35467a82e236ff51bc17a3a44b69ef35185a2" @@ -84,6 +154,12 @@ git-tree-sha1 = "f641eb0a4f00c343bbc32346e1217b86f3ce9dad" uuid = "49dc2e85-a5d0-5ad3-a950-438e2897f1b9" version = "0.5.1" +[[deps.ChainRules]] +deps = ["Adapt", "ChainRulesCore", "Compat", "Distributed", "GPUArraysCore", "IrrationalConstants", "LinearAlgebra", "Random", "RealDot", "SparseArrays", "Statistics", "StructArrays"] +git-tree-sha1 = "a5fd229d3569a6600ae47abe8cd48cbeb972e173" +uuid = "082447d4-558c-5d27-93f4-14fc19e9eca2" +version = "1.44.6" + [[deps.ChainRulesCore]] deps = ["Compat", "LinearAlgebra", "SparseArrays"] git-tree-sha1 = "dc4405cee4b2fe9e1108caec2d760b7ea758eca2" @@ -132,6 +208,16 @@ git-tree-sha1 = "417b0ed7b8b838aa6ca0a87aadf1bb9eb111ce40" uuid = "5ae59095-9a9b-59fe-a467-6f913c188581" version = "0.12.8" +[[deps.Combinatorics]] +git-tree-sha1 = "08c8b6831dc00bfea825826be0bc8336fc369860" +uuid = "861a8166-3701-5b0c-9a16-15d98fcdc6aa" +version = "1.0.2" + +[[deps.CommonSolve]] +git-tree-sha1 = "332a332c97c7071600984b3c31d9067e1a4e6e25" +uuid = "38540f10-b2f7-11e9-35d8-d573e4eb0ff2" +version = "0.2.1" + [[deps.CommonSubexpressions]] deps = ["MacroTools", "Test"] git-tree-sha1 = "7b8a93dba8af7e3b42fecabf646260105ac373f7" @@ -139,16 +225,27 @@ uuid = "bbf7d656-a473-5ed7-a52c-81e309532950" version = "0.3.0" [[deps.Compat]] -deps = ["Dates", "LinearAlgebra", "UUIDs"] -git-tree-sha1 = "5856d3031cdb1f3b2b6340dfdc66b6d9a149a374" +deps = ["Base64", "Dates", "DelimitedFiles", "Distributed", "InteractiveUtils", "LibGit2", "Libdl", "LinearAlgebra", "Markdown", "Mmap", "Pkg", "Printf", "REPL", "Random", "SHA", "Serialization", "SharedArrays", "Sockets", "SparseArrays", "Statistics", "Test", "UUIDs", "Unicode"] +git-tree-sha1 = "78bee250c6826e1cf805a88b7f1e86025275d208" uuid = "34da2185-b29b-5c13-b0c7-acf172513d20" -version = "4.2.0" +version = "3.46.0" [[deps.CompilerSupportLibraries_jll]] deps = ["Artifacts", "Libdl"] uuid = "e66e0078-7015-5450-92f7-15fbd957f2ae" version = "0.5.2+0" +[[deps.CompositionsBase]] +git-tree-sha1 = "455419f7e328a1a2493cabc6428d79e951349769" +uuid = "a33af91c-f02d-484b-be07-31d278c5ca2b" +version = "0.1.1" + +[[deps.ConsoleProgressMonitor]] +deps = ["Logging", "ProgressMeter"] +git-tree-sha1 = "3ab7b2136722890b9af903859afcf457fa3059e8" +uuid = "88cd18e8-d9cc-4ea6-8889-5259c0d15c8b" +version = "0.1.2" + [[deps.ConstructionBase]] deps = ["LinearAlgebra"] git-tree-sha1 = "fb21ddd70a051d882a1686a5a550990bbe371a95" @@ -197,6 +294,11 @@ version = "0.4.13" deps = ["Printf"] uuid = "ade2ca70-3891-5945-98fb-dc099432e06a" +[[deps.DefineSingletons]] +git-tree-sha1 = "0fba8b706d0178b4dc7fd44a96a92382c9065c2c" +uuid = "244e2a9f-e319-4986-a169-4d1fe445cd52" +version = "0.1.2" + [[deps.DelimitedFiles]] deps = ["Mmap"] uuid = "8bb1440f-4735-579b-a4ab-409b98df4dab" @@ -235,11 +337,17 @@ git-tree-sha1 = "8579b5cdae93e55c0cff50fbb0c2d1220efd5beb" uuid = "31c24e10-a181-5473-b8eb-7969acd0382f" version = "0.25.70" +[[deps.DistributionsAD]] +deps = ["Adapt", "ChainRules", "ChainRulesCore", "Compat", "DiffRules", "Distributions", "FillArrays", "LinearAlgebra", "NaNMath", "PDMats", "Random", "Requires", "SpecialFunctions", "StaticArrays", "StatsBase", "StatsFuns", "ZygoteRules"] +git-tree-sha1 = "74dd5dac82812af7041ae322584d5c2181dead5c" +uuid = "ced4e74d-a319-5a8a-b0ac-84af2272839c" +version = "0.6.42" + [[deps.DocStringExtensions]] deps = ["LibGit2"] -git-tree-sha1 = "5158c2b41018c5f7eb1470d558127ac274eca0c9" +git-tree-sha1 = "b19534d1895d702889b219c382a6e18010797f0b" uuid = "ffbed154-4ef7-542d-bbb7-c09d3a79fcae" -version = "0.9.1" +version = "0.8.6" [[deps.Documenter]] deps = ["ANSIColoredPrinters", "Base64", "Dates", "DocStringExtensions", "IOCapture", "InteractiveUtils", "JSON", "LibGit2", "Logging", "Markdown", "REPL", "Test", "Unicode"] @@ -258,12 +366,24 @@ git-tree-sha1 = "5837a837389fccf076445fce071c8ddaea35a566" uuid = "fa6b7ba4-c1ee-5f82-b5fc-ecf0adba8f74" version = "0.6.8" +[[deps.DynamicPPL]] +deps = ["AbstractMCMC", "AbstractPPL", "BangBang", "Bijectors", "ChainRulesCore", "ConstructionBase", "Distributions", "DocStringExtensions", "LinearAlgebra", "MacroTools", "OrderedCollections", "Random", "Setfield", "Test", "ZygoteRules"] +git-tree-sha1 = "7bc3920ba1e577ad3d7ebac75602ab42b557e28e" +uuid = "366bfd00-2699-11ea-058f-f148b4cae6d8" +version = "0.20.2" + [[deps.EarCut_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] git-tree-sha1 = "3f3a2501fa7236e9b911e0f7a588c657e822bb6d" uuid = "5ae413db-bbd1-5e63-b57d-d24a61df00f5" version = "2.2.3+0" +[[deps.EllipticalSliceSampling]] +deps = ["AbstractMCMC", "ArrayInterfaceCore", "Distributions", "Random", "Statistics"] +git-tree-sha1 = "4cda4527e990c0cc201286e0a0bfbbce00abcfc2" +uuid = "cad2338a-1db2-11e9-3401-43bc07c9ede2" +version = "1.0.0" + [[deps.Expat_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] git-tree-sha1 = "bad72f730e9e91c08d9427d5e8db95478a3c323d" @@ -356,6 +476,23 @@ git-tree-sha1 = "aa31987c2ba8704e23c6c8ba8a4f769d5d7e4f91" uuid = "559328eb-81f9-559d-9380-de523a88c83c" version = "1.0.10+0" +[[deps.FunctionWrappers]] +git-tree-sha1 = "241552bc2209f0fa068b6415b1942cc0aa486bcc" +uuid = "069b7b12-0de2-55c6-9aab-29f3d0a68a2e" +version = "1.1.2" + +[[deps.FunctionWrappersWrappers]] +deps = ["FunctionWrappers"] +git-tree-sha1 = "a5e6e7f12607e90d71b09e6ce2c965e41b337968" +uuid = "77dc65aa-8811-40c2-897b-53d922fa7daf" +version = "0.1.1" + +[[deps.Functors]] +deps = ["LinearAlgebra"] +git-tree-sha1 = "a2657dd0f3e8a61dbe70fc7c122038bd33790af5" +uuid = "d9f16b24-f501-4c13-a1f2-28368ffc5196" +version = "0.3.0" + [[deps.Future]] deps = ["Random"] uuid = "9fa8497b-333b-5362-9e8d-4d0656e87820" @@ -366,6 +503,12 @@ git-tree-sha1 = "d972031d28c8c8d9d7b41a536ad7bb0c2579caca" uuid = "0656b61e-2033-5cc2-a64a-77c0f6c09b89" version = "3.3.8+0" +[[deps.GPUArraysCore]] +deps = ["Adapt"] +git-tree-sha1 = "6872f5ec8fd1a38880f027a26739d42dcda6691f" +uuid = "46192b85-c4d5-4398-a991-12ede77f4527" +version = "0.1.2" + [[deps.GR]] deps = ["Base64", "DelimitedFiles", "GR_jll", "HTTP", "JSON", "Libdl", "LinearAlgebra", "Pkg", "Printf", "Random", "RelocatableFolders", "Serialization", "Sockets", "Test", "UUIDs"] git-tree-sha1 = "cf0a9940f250dc3cb6cc6c6821b4bf8a4286cf9c" @@ -442,12 +585,23 @@ git-tree-sha1 = "f550e6e32074c939295eb5ea6de31849ac2c9625" uuid = "83e8ac13-25f8-5344-8a64-a9f2b223428f" version = "0.5.1" +[[deps.InitialValues]] +git-tree-sha1 = "4da0f88e9a39111c2fa3add390ab15f3a44f3ca3" +uuid = "22cec73e-a1b8-11e9-2c92-598750a2cf9c" +version = "0.3.1" + [[deps.InlineStrings]] deps = ["Parsers"] git-tree-sha1 = "d19f9edd8c34760dca2de2b503f969d8700ed288" uuid = "842dd82b-1e85-43dc-bf29-5d0ee9dffc48" version = "1.1.4" +[[deps.InplaceOps]] +deps = ["LinearAlgebra", "Test"] +git-tree-sha1 = "50b41d59e7164ab6fda65e71049fee9d890731ff" +uuid = "505f98c9-085e-5b2c-8e89-488be7bf1f34" +version = "0.3.0" + [[deps.IntelOpenMP_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] git-tree-sha1 = "d979e54b71da82f3a65b62553da4fc3d18c9004c" @@ -464,6 +618,12 @@ git-tree-sha1 = "f67b55b6447d36733596aea445a9f119e83498b6" uuid = "a98d9a8b-a2ab-59e6-89dd-64a1c18fca59" version = "0.14.5" +[[deps.IntervalSets]] +deps = ["Dates", "Random", "Statistics"] +git-tree-sha1 = "076bb0da51a8c8d1229936a1af7bdfacd65037e1" +uuid = "8197267c-284f-5f27-9208-e0e47529a953" +version = "0.7.2" + [[deps.InverseFunctions]] deps = ["Test"] git-tree-sha1 = "b3364212fb5d870f724876ffcd34dd8ec6d98918" @@ -526,6 +686,11 @@ git-tree-sha1 = "bf36f528eec6634efc60d7ec062008f171071434" uuid = "88015f11-f218-50d7-93a8-a6af411a945d" version = "3.0.0+1" +[[deps.LRUCache]] +git-tree-sha1 = "d64a0aff6691612ab9fb0117b0995270871c5dfc" +uuid = "8ac3fa9e-de4c-5943-b1dc-09c6b5f20637" +version = "1.3.0" + [[deps.LZO_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] git-tree-sha1 = "e5b909bcf985c5e2605737d2ce278ed791b89be6" @@ -547,6 +712,12 @@ version = "0.15.16" deps = ["Artifacts", "Pkg"] uuid = "4af54fe1-eca0-43a8-85a7-787d91b784e3" +[[deps.LeftChildRightSiblingTrees]] +deps = ["AbstractTrees"] +git-tree-sha1 = "b864cb409e8e445688bc478ef87c0afe4f6d1f8d" +uuid = "1d6d02ad-be62-4b6b-8a6d-2f90e265016e" +version = "0.1.3" + [[deps.LibCURL]] deps = ["LibCURL_jll", "MozillaCACerts_jll"] uuid = "b27032c2-a3e7-50c8-80cd-2d36dbcbfd21" @@ -605,6 +776,12 @@ git-tree-sha1 = "9c30530bf0effd46e15e0fdcf2b8636e78cbbd73" uuid = "4b2f31a3-9ecc-558c-b454-b3730dcb73e9" version = "2.35.0+0" +[[deps.Libtask]] +deps = ["FunctionWrappers", "LRUCache", "LinearAlgebra", "Statistics"] +git-tree-sha1 = "dfa6c5f2d5a8918dd97c7f1a9ea0de68c2365426" +uuid = "6f1fad26-d15e-5dc8-ae53-837a1d7b8c9f" +version = "0.7.5" + [[deps.Libtiff_jll]] deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "LERC_jll", "Libdl", "Pkg", "Zlib_jll", "Zstd_jll"] git-tree-sha1 = "3eb79b0ca5764d4799c06699573fd8f533259713" @@ -633,6 +810,12 @@ git-tree-sha1 = "5b5ec7696d40868945c407f28a6672a230448b70" uuid = "98b081ad-f1c9-55d3-8b20-4c87d4299306" version = "2.13.4" +[[deps.LogDensityProblems]] +deps = ["ArgCheck", "DocStringExtensions", "Random", "Requires", "UnPack"] +git-tree-sha1 = "408a29d70f8032b50b22155e6d7776715144b761" +uuid = "6fdf6af0-433a-55f7-b3ed-c6c6e0b8df7c" +version = "1.0.2" + [[deps.LogExpFunctions]] deps = ["ChainRulesCore", "ChangesOfVariables", "DocStringExtensions", "InverseFunctions", "IrrationalConstants", "LinearAlgebra"] git-tree-sha1 = "94d9c52ca447e23eac0c0f074effbcd38830deb5" @@ -648,18 +831,41 @@ git-tree-sha1 = "5d4d2d9904227b8bd66386c1138cf4d5ffa826bf" uuid = "e6f89c97-d47a-5376-807f-9c37f3926c36" version = "0.4.9" +[[deps.MCMCChains]] +deps = ["AbstractMCMC", "AxisArrays", "Compat", "Dates", "Distributions", "Formatting", "IteratorInterfaceExtensions", "KernelDensity", "LinearAlgebra", "MCMCDiagnosticTools", "MLJModelInterface", "NaturalSort", "OrderedCollections", "PrettyTables", "Random", "RecipesBase", "Serialization", "Statistics", "StatsBase", "StatsFuns", "TableTraits", "Tables"] +git-tree-sha1 = "8cb9b8fb081afd7728f5de25b9025bff97cb5c7a" +uuid = "c7f686f2-ff18-58e9-bc7b-31028e88f75d" +version = "5.3.1" + +[[deps.MCMCDiagnosticTools]] +deps = ["AbstractFFTs", "DataAPI", "Distributions", "LinearAlgebra", "MLJModelInterface", "Random", "SpecialFunctions", "Statistics", "StatsBase", "Tables"] +git-tree-sha1 = "59ac3cc5c08023f58b9cd6a5c447c4407cede6bc" +uuid = "be115224-59cd-429b-ad48-344e309966f0" +version = "0.1.4" + [[deps.MKL_jll]] deps = ["Artifacts", "IntelOpenMP_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "Pkg"] git-tree-sha1 = "41d162ae9c868218b1f3fe78cba878aa348c2d26" uuid = "856f044c-d86e-5d09-b602-aeab76dc8ba7" version = "2022.1.0+0" +[[deps.MLJModelInterface]] +deps = ["Random", "ScientificTypesBase", "StatisticalTraits"] +git-tree-sha1 = "16fa7c2e14aa5b3854bc77ab5f1dbe2cdc488903" +uuid = "e80e1ace-859a-464e-9ed9-23947d8ae3ea" +version = "1.6.0" + [[deps.MacroTools]] deps = ["Markdown", "Random"] git-tree-sha1 = "3d3e902b31198a27340d0bf00d6ac452866021cf" uuid = "1914dd2f-81c6-5fcd-8719-6d5c9610ff09" version = "0.5.9" +[[deps.MappedArrays]] +git-tree-sha1 = "e8b359ef06ec72e8c030463fe02efe5527ee5142" +uuid = "dbb5928d-eab1-5f90-85c2-b9b0edb7c900" +version = "0.4.1" + [[deps.Markdown]] deps = ["Base64"] uuid = "d6f4376e-aef5-505a-96c1-9c027394607a" @@ -680,6 +886,12 @@ git-tree-sha1 = "e498ddeee6f9fdb4551ce855a46f54dbd900245f" uuid = "442fdcdd-2543-5da2-b0f3-8c86c306513e" version = "0.3.1" +[[deps.MicroCollections]] +deps = ["BangBang", "InitialValues", "Setfield"] +git-tree-sha1 = "6bb7786e4f24d44b4e29df03c69add1b63d88f01" +uuid = "128add7d-3638-4c79-886c-908ea0c25c34" +version = "0.1.2" + [[deps.Missings]] deps = ["DataAPI"] git-tree-sha1 = "bf210ce90b6c9eed32d25dbcae1ebc565df2687f" @@ -705,12 +917,29 @@ git-tree-sha1 = "50310f934e55e5ca3912fb941dec199b49ca9b68" uuid = "d41bc354-129a-5804-8e4c-c37616107c6c" version = "7.8.2" +[[deps.NNlib]] +deps = ["Adapt", "ChainRulesCore", "LinearAlgebra", "Pkg", "Requires", "Statistics"] +git-tree-sha1 = "415108fd88d6f55cedf7ee940c7d4b01fad85421" +uuid = "872c559c-99b0-510c-b3b7-b6c96a88d5cd" +version = "0.8.9" + [[deps.NaNMath]] deps = ["OpenLibm_jll"] git-tree-sha1 = "a7c3d1da1189a1c2fe843a3bfa04d18d20eb3211" uuid = "77ba4419-2d1f-58cd-9bb1-8ffee604a2e3" version = "1.0.1" +[[deps.NamedArrays]] +deps = ["Combinatorics", "DataStructures", "DelimitedFiles", "InvertedIndices", "LinearAlgebra", "Random", "Requires", "SparseArrays", "Statistics"] +git-tree-sha1 = "2fd5787125d1a93fbe30961bd841707b8a80d75b" +uuid = "86f7a689-2022-50b4-a561-43c23ac3c673" +version = "0.9.6" + +[[deps.NaturalSort]] +git-tree-sha1 = "eda490d06b9f7c00752ee81cfa451efe55521e21" +uuid = "c020b1a1-e9b0-503a-9c33-f039bfc54a85" +version = "1.0.0" + [[deps.NearestNeighbors]] deps = ["Distances", "StaticArrays"] git-tree-sha1 = "0e353ed734b1747fc20cd4cba0edd9ac027eff6a" @@ -772,6 +1001,12 @@ git-tree-sha1 = "b9fe76d1a39807fdcf790b991981a922de0c3050" uuid = "429524aa-4258-5aef-a3af-852621145aeb" version = "1.7.3" +[[deps.Optimisers]] +deps = ["ChainRulesCore", "Functors", "LinearAlgebra", "Random", "Statistics"] +git-tree-sha1 = "1ef34738708e3f31994b52693286dabcb3d29f6b" +uuid = "3bd65402-5787-11e9-1adc-39752487f4e2" +version = "0.2.9" + [[deps.Opus_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] git-tree-sha1 = "51a08fb14ec28da2ec7a927c4337e4332c2a4720" @@ -864,6 +1099,18 @@ version = "1.3.1" deps = ["Unicode"] uuid = "de0858da-6303-5e67-8744-51eddeeeb8d7" +[[deps.ProgressLogging]] +deps = ["Logging", "SHA", "UUIDs"] +git-tree-sha1 = "80d919dee55b9c50e8d9e2da5eeafff3fe58b539" +uuid = "33c8b6b6-d38a-422a-b730-caa89a2f386c" +version = "0.1.4" + +[[deps.ProgressMeter]] +deps = ["Distributed", "Printf"] +git-tree-sha1 = "d7a7aef8f8f2d537104f170139553b14dfe39fe9" +uuid = "92933f4c-e287-5a05-a399-4b506db050ca" +version = "1.7.2" + [[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 = "c6c0f690d0cc7caddb74cef7aa847b824a16b256" @@ -884,12 +1131,23 @@ uuid = "3fa0cd96-eef1-5676-8a61-b3b8758bbffb" deps = ["SHA", "Serialization"] uuid = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c" +[[deps.RangeArrays]] +git-tree-sha1 = "b9039e93773ddcfc828f12aadf7115b4b4d225f5" +uuid = "b3c3ace0-ae52-54e7-9d0b-2c1406fd6b9d" +version = "0.3.2" + [[deps.Ratios]] deps = ["Requires"] git-tree-sha1 = "dc84268fe0e3335a62e315a3a7cf2afa7178a734" uuid = "c84ed2f1-dad5-54f0-aa8e-dbefe2724439" version = "0.4.3" +[[deps.RealDot]] +deps = ["LinearAlgebra"] +git-tree-sha1 = "9f0a1b71baaf7650f4fa8a1d168c7fb6ee41f0c9" +uuid = "c1ae055f-0cd5-4b69-90a6-9a35b1a98df9" +version = "0.1.0" + [[deps.RecipesBase]] git-tree-sha1 = "6bf3f380ff52ce0832ddd3a2a7b9538ed1bcca7d" uuid = "3cdcf5f2-1ef4-517c-9805-6587b60abb01" @@ -901,6 +1159,12 @@ git-tree-sha1 = "e7eac76a958f8664f2718508435d058168c7953d" uuid = "01d81517-befc-4cb6-b9ec-a95719d0359c" version = "0.6.3" +[[deps.RecursiveArrayTools]] +deps = ["Adapt", "ArrayInterfaceCore", "ArrayInterfaceStaticArraysCore", "ChainRulesCore", "DocStringExtensions", "FillArrays", "GPUArraysCore", "IteratorInterfaceExtensions", "LinearAlgebra", "RecipesBase", "StaticArraysCore", "Statistics", "Tables", "ZygoteRules"] +git-tree-sha1 = "3004608dc42101a944e44c1c68b599fa7c669080" +uuid = "731186ca-8d62-57ce-b412-fbd966d074cd" +version = "2.32.0" + [[deps.Reexport]] git-tree-sha1 = "45e428421666073eab6f2da5c9d310d99bb12f9b" uuid = "189a3867-3050-52da-a836-e630ba90ab69" @@ -930,10 +1194,27 @@ git-tree-sha1 = "68db32dff12bb6127bac73c209881191bf0efbb7" uuid = "f50d1b31-88e8-58de-be2c-1cc44531875f" version = "0.3.0+0" +[[deps.Roots]] +deps = ["CommonSolve", "Printf", "Setfield"] +git-tree-sha1 = "50f945fb7d7fdece03bbc76ff1ab96170f64a892" +uuid = "f2b01f46-fcfa-551c-844a-d8ac1e96c665" +version = "2.0.2" + [[deps.SHA]] uuid = "ea8e919c-243c-51af-8825-aaa63cd721ce" version = "0.7.0" +[[deps.SciMLBase]] +deps = ["ArrayInterfaceCore", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "RecipesBase", "RecursiveArrayTools", "StaticArraysCore", "Statistics", "Tables"] +git-tree-sha1 = "ea841731365b36e5d05e79259136478337c3a484" +uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462" +version = "1.54.1" + +[[deps.ScientificTypesBase]] +git-tree-sha1 = "a8e18eb383b5ecf1b5e6fc237eb39255044fd92b" +uuid = "30f210dd-8aff-4c5f-94ba-8e64358c1161" +version = "3.0.0" + [[deps.Scratch]] deps = ["Dates"] git-tree-sha1 = "f94f779c94e58bf9ea243e77a37e16d9de9126bd" @@ -950,10 +1231,10 @@ version = "1.3.13" uuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b" [[deps.Setfield]] -deps = ["ConstructionBase", "Future", "MacroTools", "StaticArraysCore"] -git-tree-sha1 = "e2cc6d8c88613c05e1defb55170bf5ff211fbeac" +deps = ["ConstructionBase", "Future", "MacroTools", "Requires"] +git-tree-sha1 = "38d88503f695eb0301479bc9b0d4320b378bafe5" uuid = "efcf1570-3423-57d1-acb7-fd33fddbac46" -version = "1.1.1" +version = "0.8.2" [[deps.SharedArrays]] deps = ["Distributed", "Mmap", "Random", "Serialization"] @@ -994,6 +1275,12 @@ git-tree-sha1 = "d75bda01f8c31ebb72df80a46c88b25d1c79c56d" uuid = "276daf66-3868-5448-9aa4-cd146d93841b" version = "2.1.7" +[[deps.SplittablesBase]] +deps = ["Setfield", "Test"] +git-tree-sha1 = "39c9f91521de844bad65049efd4f9223e7ed43f9" +uuid = "171d559e-b47b-412a-8079-5efa626c420e" +version = "0.1.14" + [[deps.StaticArrays]] deps = ["LinearAlgebra", "Random", "StaticArraysCore", "Statistics"] git-tree-sha1 = "dfec37b90740e3b9aa5dc2613892a3fc155c3b42" @@ -1005,6 +1292,12 @@ git-tree-sha1 = "ec2bd695e905a3c755b33026954b119ea17f2d22" uuid = "1e83bf80-4336-4d27-bf5d-d5a4f845583c" version = "1.3.0" +[[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" @@ -1077,16 +1370,40 @@ git-tree-sha1 = "1feb45f88d133a655e001435632f019a9a1bcdb6" uuid = "62fd8b95-f654-4bbd-a8a5-9c27f68ccd50" version = "0.1.1" +[[deps.TerminalLoggers]] +deps = ["LeftChildRightSiblingTrees", "Logging", "Markdown", "Printf", "ProgressLogging", "UUIDs"] +git-tree-sha1 = "f53e34e784ae771eb9ccde4d72e578aa453d0554" +uuid = "5d786b92-1e48-4d6f-9151-6b4477ca9bed" +version = "0.1.6" + [[deps.Test]] deps = ["InteractiveUtils", "Logging", "Random", "Serialization"] uuid = "8dfed614-e22c-5e08-85e1-65c5234f0b40" +[[deps.Tracker]] +deps = ["Adapt", "DiffRules", "ForwardDiff", "Functors", "LinearAlgebra", "LogExpFunctions", "MacroTools", "NNlib", "NaNMath", "Optimisers", "Printf", "Random", "Requires", "SpecialFunctions", "Statistics"] +git-tree-sha1 = "d963aad627fd7af56fbbfee67703c2f7bfee9dd7" +uuid = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" +version = "0.2.22" + [[deps.TranscodingStreams]] deps = ["Random", "Test"] git-tree-sha1 = "8a75929dcd3c38611db2f8d08546decb514fcadf" uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa" version = "0.9.9" +[[deps.Transducers]] +deps = ["Adapt", "ArgCheck", "BangBang", "Baselet", "CompositionsBase", "DefineSingletons", "Distributed", "InitialValues", "Logging", "Markdown", "MicroCollections", "Requires", "Setfield", "SplittablesBase", "Tables"] +git-tree-sha1 = "c76399a3bbe6f5a88faa33c8f8a65aa631d95013" +uuid = "28d57a85-8fef-5791-bfe6-a80928e7c999" +version = "0.4.73" + +[[deps.Turing]] +deps = ["AbstractMCMC", "AdvancedHMC", "AdvancedMH", "AdvancedPS", "AdvancedVI", "BangBang", "Bijectors", "DataStructures", "Distributions", "DistributionsAD", "DocStringExtensions", "DynamicPPL", "EllipticalSliceSampling", "ForwardDiff", "Libtask", "LinearAlgebra", "LogDensityProblems", "MCMCChains", "NamedArrays", "Printf", "Random", "Reexport", "Requires", "SciMLBase", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns", "Tracker"] +git-tree-sha1 = "68fb67dab0c11de2bb1d761d7a742b965a9bc875" +uuid = "fce5fe82-541a-59a6-adf8-730c64b5f9a0" +version = "0.21.12" + [[deps.URIs]] git-tree-sha1 = "e59ecc5a41b000fa94423a578d29290c7266fc10" uuid = "5c2747f8-b7ea-4ff2-ba2e-563bfd36b1d4" @@ -1294,6 +1611,12 @@ git-tree-sha1 = "e45044cd873ded54b6a5bac0eb5c971392cf1927" uuid = "3161d3a3-bdf6-5164-811a-617609db77b4" version = "1.5.2+0" +[[deps.ZygoteRules]] +deps = ["MacroTools"] +git-tree-sha1 = "8c1a8e4dfacb1fd631745552c8db35d0deb09ea0" +uuid = "700de1a5-db45-46bc-99cf-38207098b444" +version = "0.2.2" + [[deps.libaom_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] git-tree-sha1 = "3a2ea60308f0996d26f1e5354e10c24e9ef905d4" diff --git a/docs/Project.toml b/docs/Project.toml index 4679712..e2cc356 100644 --- a/docs/Project.toml +++ b/docs/Project.toml @@ -14,3 +14,4 @@ Parameters = "d96e819e-fc66-5662-9728-84c9c7592b0a" Plots = "91a5bcdd-55d7-5caf-9e0b-520d859cae80" StatsBase = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91" StatsPlots = "f3b207a7-027a-5e70-b257-86293d7955fd" +Turing = "fce5fe82-541a-59a6-adf8-730c64b5f9a0"