From 7932b890025bcdead321a3b673a26ccb8dc33dc0 Mon Sep 17 00:00:00 2001 From: Tor Erlend Fjelde Date: Thu, 24 Sep 2020 14:34:32 +0100 Subject: [PATCH] added src and cleaned up deps --- Manifest.toml | 1646 ---------------------------------------- Project.toml | 31 +- src/TuringTutorials.jl | 123 +++ 3 files changed, 130 insertions(+), 1670 deletions(-) delete mode 100644 Manifest.toml create mode 100644 src/TuringTutorials.jl diff --git a/Manifest.toml b/Manifest.toml deleted file mode 100644 index 04ca7ad9e..000000000 --- a/Manifest.toml +++ /dev/null @@ -1,1646 +0,0 @@ -# This file is machine-generated - editing it directly is not advised - -[[AbstractAlgebra]] -deps = ["InteractiveUtils", "LinearAlgebra", "Markdown", "Random", "SparseArrays", "Test"] -git-tree-sha1 = "8fa03ecf25341ff3e8fb301dba3f41c6fe09952e" -uuid = "c3fe647b-3220-5bb0-a1ea-a7954cac585d" -version = "0.10.0" - -[[AbstractFFTs]] -deps = ["LinearAlgebra"] -git-tree-sha1 = "051c95d6836228d120f5f4b984dd5aba1624f716" 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-uuid = "a5390f91-8eb1-5f08-bee0-b1d1ffed6cea" -version = "0.9.2" - -[[Zlib_jll]] -deps = ["Libdl", "Pkg"] -git-tree-sha1 = "fdd89e5ab270ea0f2a0174bd9093e557d06d4bfa" -uuid = "83775a58-1f1d-513f-b197-d71354ab007a" -version = "1.2.11+16" - -[[Zygote]] -deps = ["AbstractFFTs", "ArrayLayouts", "ChainRules", "DiffRules", "Distributed", "FillArrays", "ForwardDiff", "Future", "IRTools", "InteractiveUtils", "LinearAlgebra", "LoopVectorization", "MacroTools", "NNlib", "NaNMath", "Random", "Requires", "SpecialFunctions", "Statistics", "ZygoteRules"] -git-tree-sha1 = "e7b3106f045bd6e526708d1a7821ee9ecc24d094" -uuid = "e88e6eb3-aa80-5325-afca-941959d7151f" -version = "0.5.7" - -[[ZygoteRules]] -deps = ["MacroTools"] -git-tree-sha1 = "b3b4882cc9accf6731a08cc39543fbc6b669dca8" -uuid = "700de1a5-db45-46bc-99cf-38207098b444" -version = "0.2.0" - -[[libass_jll]] -deps = ["Bzip2_jll", "FreeType2_jll", "FriBidi_jll", "Libdl", "Pkg", "Zlib_jll"] -git-tree-sha1 = "f02d0db58888592e98c5f4953cef620ce9274eee" -uuid = "0ac62f75-1d6f-5e53-bd7c-93b484bb37c0" -version = "0.14.0+3" - -[[libfdk_aac_jll]] -deps = ["Libdl", "Pkg"] -git-tree-sha1 = "e17b4513993b4413d31cffd1b36a63625ebbc3d3" -uuid = "f638f0a6-7fb0-5443-88ba-1cc74229b280" -version = "0.1.6+3" - -[[libvorbis_jll]] -deps = ["Libdl", "Ogg_jll", "Pkg"] -git-tree-sha1 = "8014e1c1033009edcfe820ec25877a9f1862ba4c" -uuid = "f27f6e37-5d2b-51aa-960f-b287f2bc3b7a" -version = "1.3.6+5" - -[[x264_jll]] -deps = ["Libdl", "Pkg"] -git-tree-sha1 = "e496625b900df1b02ab0e02fad316b77446616ef" -uuid = "1270edf5-f2f9-52d2-97e9-ab00b5d0237a" -version = "2020.7.14+1" - -[[x265_jll]] -deps = ["Libdl", "Pkg"] -git-tree-sha1 = "ac7d44fa1639a780d0ae79ca1a5a7f4181131825" -uuid = "dfaa095f-4041-5dcd-9319-2fabd8486b76" -version = "3.0.0+2" diff --git a/Project.toml b/Project.toml index f947bb9a0..72e38e72e 100644 --- a/Project.toml +++ b/Project.toml @@ -1,29 +1,12 @@ +name = "TuringTutorials" +version = "0.1.0" + [deps] -Bijectors = "76274a88-744f-5084-9051-94815aaf08c4" -ConjugatePriors = "1624bea9-42b1-5fc1-afd3-e96f729c8d6c" -DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0" -DiffEqBase = "2b5f629d-d688-5b77-993f-72d75c75574e" -DiffEqBayes = "ebbdde9d-f333-5424-9be2-dbf1e9acfb5e" -DiffEqSensitivity = "41bf760c-e81c-5289-8e54-58b1f1f8abe2" -DifferentialEquations = "0c46a032-eb83-5123-abaf-570d42b7fbaa" -Distances = "b4f34e82-e78d-54a5-968a-f98e89d6e8f7" -Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f" -Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4" -Flux = "587475ba-b771-5e3f-ad9e-33799f191a9c" -GLM = "38e38edf-8417-5370-95a0-9cbb8c7f171a" -LaTeXStrings = "b964fa9f-0449-5b57-a5c2-d3ea65f4040f" -MCMCChains = "c7f686f2-ff18-58e9-bc7b-31028e88f75d" -MLDataUtils = "cc2ba9b6-d476-5e6d-8eaf-a92d5412d41d" -NNlib = "872c559c-99b0-510c-b3b7-b6c96a88d5cd" -Plots = "91a5bcdd-55d7-5caf-9e0b-520d859cae80" -PyPlot = "d330b81b-6aea-500a-939a-2ce795aea3ee" -RDatasets = "ce6b1742-4840-55fa-b093-852dadbb1d8b" +IJulia = "7073ff75-c697-5162-941a-fcdaad2a7d2a" +InteractiveUtils = "b77e0a4c-d291-57a0-90e8-8db25a27a240" +Pkg = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f" Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c" -StatsFuns = "4c63d2b9-4356-54db-8cca-17b64c39e42c" -StatsPlots = "f3b207a7-027a-5e70-b257-86293d7955fd" -Turing = "fce5fe82-541a-59a6-adf8-730c64b5f9a0" Weave = "44d3d7a6-8a23-5bf8-98c5-b353f8df5ec9" -Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" [compat] -julia = "1" +julia = "1" \ No newline at end of file diff --git a/src/TuringTutorials.jl b/src/TuringTutorials.jl new file mode 100644 index 000000000..2b336428c --- /dev/null +++ b/src/TuringTutorials.jl @@ -0,0 +1,123 @@ +module TuringTutorials + +using Weave, Pkg, InteractiveUtils, IJulia + +repo_directory = joinpath(@__DIR__,"..") +cssfile = joinpath(@__DIR__, "..", "templates", "skeleton_css.css") +latexfile = joinpath(@__DIR__, "..", "templates", "julia_tex.tpl") + +function weave_file(folder,file,build_list=(:script,:html,:pdf,:github,:notebook); kwargs...) + tmp = joinpath(repo_directory,"tutorials",folder,file) + Pkg.activate(dirname(tmp)) + Pkg.instantiate() + args = Dict{Symbol,String}(:folder=>folder,:file=>file) + if :script ∈ build_list + println("Building Script") + dir = joinpath(repo_directory,"script",folder) + isdir(dir) || mkpath(dir) + args[:doctype] = "script" + tangle(tmp;out_path=dir) + end + if :html ∈ build_list + println("Building HTML") + dir = joinpath(repo_directory,"html",folder) + isdir(dir) || mkpath(dir) + args[:doctype] = "html" + weave(tmp,doctype = "md2html",out_path=dir,args=args; fig_ext=".svg", css=cssfile, kwargs...) + end + if :pdf ∈ build_list + println("Building PDF") + dir = joinpath(repo_directory,"pdf",folder) + isdir(dir) || mkpath(dir) + args[:doctype] = "pdf" + try + weave(tmp,doctype="md2pdf",out_path=dir,args=args; template=latexfile, kwargs...) + catch ex + @warn "PDF generation failed" exception=(ex, catch_backtrace()) + end + end + if :github ∈ build_list + println("Building Github Markdown") + dir = joinpath(repo_directory,"markdown",folder) + isdir(dir) || mkpath(dir) + args[:doctype] = "github" + weave(tmp,doctype = "github",out_path=dir,args=args; kwargs...) + end + if :notebook ∈ build_list + println("Building Notebook") + dir = joinpath(repo_directory,"notebook",folder) + isdir(dir) || mkpath(dir) + args[:doctype] = "notebook" + Weave.convert_doc(tmp,joinpath(dir,file[1:end-4]*".ipynb")) + end +end + +function weave_all() + for folder in readdir(joinpath(repo_directory,"tutorials")) + folder == "test.jmd" && continue + weave_folder(folder) + end +end + +function weave_folder(folder) + for file in readdir(joinpath(repo_directory,"tutorials",folder)) + println("Building $(joinpath(folder,file)))") + try + weave_file(folder,file) + catch + end + end +end + +function tutorial_footer(folder=nothing, file=nothing; remove_homedir=true) + display("text/markdown", """ + ## Appendix + This tutorial is part of the TuringTutorials.jl repository, found at: .. + """) + if folder !== nothing && file !== nothing + display("text/markdown", """ + To locally run this tutorial, do the following commands: + ``` + using TuringTutorials + TuringTutorials.weave_file("$folder","$file") + ``` + """) + end + display("text/markdown", "Computer Information:") + vinfo = sprint(InteractiveUtils.versioninfo) + display("text/markdown", """ + ``` + $(vinfo) + ``` + """) + + ctx = Pkg.API.Context() + pkgs = Pkg.Display.status(Pkg.API.Context(), use_as_api=true); + projfile = ctx.env.project_file + remove_homedir && (projfile = replace(projfile, homedir() => "~")) + + display("text/markdown",""" + Package Information: + """) + + md = "" + md *= "```\nStatus `$(projfile)`\n" + + for pkg in pkgs + if !isnothing(pkg.old) && pkg.old.ver !== nothing + md *= "[$(string(pkg.uuid))] $(string(pkg.name)) $(string(pkg.old.ver))\n" + else + md *= "[$(string(pkg.uuid))] $(string(pkg.name))\n" + end + end + md *= "```" + display("text/markdown", md) +end + +function open_notebooks() + Base.eval(Main, Meta.parse("import IJulia")) + path = joinpath(repo_directory,"notebook") + IJulia.notebook(;dir=path) +end + +end