diff --git a/Manifest.toml b/Manifest.toml index 5abc811..4b4abb3 100644 --- a/Manifest.toml +++ b/Manifest.toml @@ -6,6 +6,12 @@ git-tree-sha1 = "051c95d6836228d120f5f4b984dd5aba1624f716" uuid = "621f4979-c628-5d54-868e-fcf4e3e8185c" version = "0.5.0" +[[AbstractMCMC]] +deps = ["ProgressMeter", "Random", "StatsBase"] +git-tree-sha1 = "b2c89b3c9c63dbcc0842293c713143a9bbdff79f" +uuid = "80f14c24-f653-4e6a-9b94-39d6b0f70001" +version = "0.1.0" + [[ArgCheck]] deps = ["Random"] git-tree-sha1 = "dab25d711a1dedb707a55dbc1eb9fd578f76ff32" @@ -13,16 +19,28 @@ uuid = "dce04be8-c92d-5529-be00-80e4d2c0e197" version = "1.0.1" [[Arpack]] -deps = ["BinaryProvider", "Libdl", "LinearAlgebra"] -git-tree-sha1 = "07a2c077bdd4b6d23a40342a8a108e2ee5e58ab6" +deps = ["Arpack_jll", "Libdl", "LinearAlgebra"] +git-tree-sha1 = "2ff92b71ba1747c5fdd541f8fc87736d82f40ec9" uuid = "7d9fca2a-8960-54d3-9f78-7d1dccf2cb97" -version = "0.3.1" +version = "0.4.0" + +[[Arpack_jll]] +deps = ["Libdl", "OpenBLAS_jll", "Pkg"] +git-tree-sha1 = "68a90a692ddc0eb72d69a6993ca26e2a923bf195" +uuid = "68821587-b530-5797-8361-c406ea357684" +version = "3.5.0+2" [[ArrayInterface]] deps = ["LinearAlgebra", "Requires", "SparseArrays"] -git-tree-sha1 = "981354dab938901c2b607a213e62d9defa50b698" +git-tree-sha1 = "487fc79b7b77cef8391675c0000ccd8e933e3533" uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9" -version = "1.2.1" +version = "2.0.0" + +[[ArrayLayouts]] +deps = ["FillArrays", "LinearAlgebra"] +git-tree-sha1 = "bc779df8d73be70e4e05a63727d3a4dfb4c52b1f" +uuid = "4c555306-a7a7-4459-81d9-ec55ddd5c99a" +version = "0.1.5" [[AxisAlgorithms]] deps = ["LinearAlgebra", "Random", "SparseArrays", "WoodburyMatrices"] @@ -119,9 +137,9 @@ uuid = "8bb1440f-4735-579b-a4ab-409b98df4dab" [[DiffEqDiffTools]] deps = ["ArrayInterface", "LinearAlgebra", "Requires", "SparseArrays", "StaticArrays"] -git-tree-sha1 = "81edfb3a8b55154772bb6080b5db40868e1778ed" +git-tree-sha1 = "6d83f9b2c2a552bf5ce29c20a526c0cbfd9e5270" uuid = "01453d9d-ee7c-5054-8395-0335cb756afa" -version = "1.4.0" +version = "1.5.0" [[DiffResults]] deps = ["Compat", "StaticArrays"] @@ -140,10 +158,10 @@ deps = ["Random", "Serialization", "Sockets"] uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b" [[Distributions]] -deps = ["LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns"] -git-tree-sha1 = "ce189b71fac635d6ec9582dc0f208887db25e6d3" +deps = ["FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns"] +git-tree-sha1 = "0c9890902286ca5c5871b29d54f134bb9d0346c4" uuid = "31c24e10-a181-5473-b8eb-7969acd0382f" -version = "0.21.8" +version = "0.21.10" [[DocStringExtensions]] deps = ["LibGit2", "Markdown", "Pkg", "Test"] @@ -170,15 +188,15 @@ version = "0.7.0" [[FillArrays]] deps = ["LinearAlgebra", "Random", "SparseArrays"] -git-tree-sha1 = "de38b0253ade98340fabaf220f368f6144541938" +git-tree-sha1 = "1a9fe4e1323f38de0ba4da49eafd15b25ec62298" uuid = "1a297f60-69ca-5386-bcde-b61e274b549b" -version = "0.7.4" +version = "0.8.2" [[ForwardDiff]] deps = ["CommonSubexpressions", "DiffResults", "DiffRules", "NaNMath", "Random", "SpecialFunctions", "StaticArrays"] -git-tree-sha1 = "4407e7b76999eca2646abdb68203bd4302476168" +git-tree-sha1 = "da46ac97b17793eba44ff366dc6cb70f1238a738" uuid = "f6369f11-7733-5829-9624-2563aa707210" -version = "0.10.6" +version = "0.10.7" [[Future]] deps = ["Random"] @@ -229,10 +247,10 @@ uuid = "5ab0869b-81aa-558d-bb23-cbf5423bbe9b" version = "0.5.1" [[LazyArrays]] -deps = ["FillArrays", "LinearAlgebra", "MacroTools", "StaticArrays"] -git-tree-sha1 = "262c129448cad8b073315244eb54b31932123619" +deps = ["ArrayLayouts", "FillArrays", "LinearAlgebra", "MacroTools", "StaticArrays"] +git-tree-sha1 = "f787fc888b28b83ae32863f2ae54f47e8ca40eaf" uuid = "5078a376-72f3-5289-bfd5-ec5146d43c02" -version = "0.13.1" +version = "0.14.10" [[LibGit2]] deps = ["Printf"] @@ -255,16 +273,16 @@ uuid = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e" uuid = "56ddb016-857b-54e1-b83d-db4d58db5568" [[MCMCChains]] -deps = ["AxisArrays", "DataFrames", "Distributions", "KernelDensity", "LinearAlgebra", "Random", "RecipesBase", "Serialization", "Showoff", "SpecialFunctions", "Statistics", "StatsBase"] -git-tree-sha1 = "e5a6061e2e9ee308e35bde2e763ee147b352b014" +deps = ["AbstractMCMC", "AxisArrays", "DataFrames", "Distributions", "KernelDensity", "LinearAlgebra", "Random", "RecipesBase", "Serialization", "Showoff", "SpecialFunctions", "Statistics", "StatsBase"] +git-tree-sha1 = "4115907fc623bd64fe9dd25dbe841d03ba462b6e" uuid = "c7f686f2-ff18-58e9-bc7b-31028e88f75d" -version = "0.3.15" +version = "0.4.0" [[MacroTools]] -deps = ["Compat", "DataStructures", "Test"] -git-tree-sha1 = "82921f0e3bde6aebb8e524efc20f4042373c0c06" +deps = ["DataStructures", "Markdown", "Random"] +git-tree-sha1 = "e2fc7a55bb2224e203bbd8b59f72b91323233458" uuid = "1914dd2f-81c6-5fcd-8719-6d5c9610ff09" -version = "0.5.2" +version = "0.5.3" [[Markdown]] deps = ["Base64"] @@ -296,15 +314,21 @@ uuid = "d9ec5142-1e00-5aa0-9d6a-321866360f50" version = "0.12.0" [[OffsetArrays]] -git-tree-sha1 = "1af2f79c7eaac3e019a0de41ef63335ff26a0a57" +git-tree-sha1 = "1ae707306f6e33dbb37d0742e08828562772b73f" uuid = "6fe1bfb0-de20-5000-8ca7-80f57d26f881" -version = "0.11.1" +version = "0.11.2" + +[[OpenBLAS_jll]] +deps = ["Libdl", "Pkg"] +git-tree-sha1 = "87f80e645b1fbf22f7d1f99168abb8ef313d0422" +uuid = "4536629a-c528-5b80-bd46-f80d51c5b363" +version = "0.3.7+1" [[Optim]] deps = ["Calculus", "DiffEqDiffTools", "FillArrays", "ForwardDiff", "LineSearches", "LinearAlgebra", "NLSolversBase", "NaNMath", "Parameters", "PositiveFactorizations", "Printf", "Random", "SparseArrays", "StatsBase"] -git-tree-sha1 = "82fef839bdb869674b4cdce178f15f7a49f00b0b" +git-tree-sha1 = "40b6971747c6ddc2f729a08ffe8359f3a736cc18" uuid = "429524aa-4258-5aef-a3af-852621145aeb" -version = "0.19.4" +version = "0.19.5" [[OrderedCollections]] deps = ["Random", "Serialization", "Test"] @@ -349,6 +373,12 @@ version = "0.2.3" deps = ["Unicode"] uuid = "de0858da-6303-5e67-8744-51eddeeeb8d7" +[[ProgressMeter]] +deps = ["Distributed", "Printf"] +git-tree-sha1 = "ea1f4fa0ff5e8b771bf130d87af5b7ef400760bd" +uuid = "92933f4c-e287-5a05-a399-4b506db050ca" +version = "1.2.0" + [[QuadGK]] deps = ["DataStructures", "LinearAlgebra"] git-tree-sha1 = "1af46bf083b9630a5b27d4fd94f496c5fca642a8" @@ -435,9 +465,9 @@ version = "0.8.0" [[StanBase]] deps = ["CSV", "DataFrames", "DelimitedFiles", "Distributed", "DocStringExtensions", "MCMCChains", "NamedTupleTools", "Parameters", "Random", "Reexport", "StanDump", "StanRun", "StanSamples", "Unicode"] -git-tree-sha1 = "6437fdf3a2054657eeba7aef0afc90ddcdcca880" +git-tree-sha1 = "572c6024437709b6ee57ebeafafa09a3cf246925" uuid = "d0ee94f6-a23d-54aa-bbe9-7f572d6da7f5" -version = "1.0.2" +version = "1.0.3" [[StanDump]] deps = ["ArgCheck", "DocStringExtensions"] @@ -475,9 +505,9 @@ version = "0.32.0" [[StatsFuns]] deps = ["Rmath", "SpecialFunctions"] -git-tree-sha1 = "67745a79d8e83a83737a7e17a383c54720a97f41" +git-tree-sha1 = "c743824db897673c03b77f7756299ca0eb078e72" uuid = "4c63d2b9-4356-54db-8cca-17b64c39e42c" -version = "0.9.0" +version = "0.9.1" [[SuiteSparse]] deps = ["Libdl", "LinearAlgebra", "Serialization", "SparseArrays"] diff --git a/Project.toml b/Project.toml index e00a29a..865dfe8 100644 --- a/Project.toml +++ b/Project.toml @@ -1,7 +1,7 @@ name = "StanSample" uuid = "c1514b29-d3a0-5178-b312-660c88baa699" authors = ["Rob J Goedman "] -version = "1.0.1" +version = "1.0.2" [deps] CSV = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b"