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BasicPlutoTemplate.jl
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BasicPlutoTemplate.jl
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### A Pluto.jl notebook ###
# v0.19.27
#> custom_attrs = ["hide-enabled"]
#>
#> [frontmatter]
#> author = "Stefan Bringuier"
#> title = "Notebook Template"
#> date = "2023-08-31"
#> license = "CC-BY-4.0"
#> description = "Provides functionality for references and equations."
#> email = "stefanbringuier@gmail.com"
#> tags = ["Templates"]
using Markdown
using InteractiveUtils
# This Pluto notebook uses @bind for interactivity. When running this notebook outside of Pluto, the following 'mock version' of @bind gives bound variables a default value (instead of an error).
macro bind(def, element)
quote
local iv = try Base.loaded_modules[Base.PkgId(Base.UUID("6e696c72-6542-2067-7265-42206c756150"), "AbstractPlutoDingetjes")].Bonds.initial_value catch; b -> missing; end
local el = $(esc(element))
global $(esc(def)) = Core.applicable(Base.get, el) ? Base.get(el) : iv(el)
el
end
end
# ╔═╡ b1231cdc-45ce-4f0f-b0ad-5c60e6ed4680
begin
using Plots
using PlutoUI, PlutoExtras
using ShortCodes
using MarkdownLiteral: @mdx
end;
# ╔═╡ 6b8c8be1-c437-4862-a83f-3edbcf82a25d
md"""
# Notebook Template
**Author**: [Stefan Bringuier](https://stefanbringuier.info)
"""
# ╔═╡ f195464d-39e5-4af8-833b-9e559e643e7c
md"""
Below is how you cross-reference $\LaTeX$ equations using the [PlutoExtras.jl](https://disberd.github.io/PlutoExtras.jl/stable/) package. Don't know why this is in the PlutoUI.jl packge.
A useful periodic function is given in $(eqref("periodic")).
!!! note
To use the cross-reference functionality of `PlutoExtras.jl`, you have to put $\LaTeX$ in its own cell using the `texeq` macro. You don't need to include \$ but do need to add a `\label`.
"""
# ╔═╡ ae91ff53-4686-4ddc-9f8c-36864b91c0a7
texeq"f(x)= A\cdot \sin(x) \label{periodic}"
# ╔═╡ 147069e0-551e-489c-8b36-a96548e269a0
md"""
## References
$(@bind refresh Button("Refresh"))
"""
# ╔═╡ fc6e2fb7-4714-4d79-8d88-ad60a0c1ba19
md"""
!!! warning
Its possible reference ordering within the notebook get stale, so rerun the cell below or click "Refresh" button above.
"""
# ╔═╡ 43d6526a-4296-462c-ba99-e5130a42b724
begin
refresh
references = Dict(
"julia" => DOI("10.1137/141000671"),
"turing" => DOI("10.1007/978-1-4020-6710-5_3"),
)
end;
# ╔═╡ 0484e6e2-9457-4a6e-98d8-56999d32ded5
begin
function create_cite_function()
ref_order = Dict{String, Int64}()
order_list = DOI[]
function cite(name::String)
if !haskey(ref_order, name)
ref_order[name] = length(ref_order) + 1
push!(order_list, references[name])
end
return "[$(ref_order[name])]"
end
get_reference_order() = order_list
return cite, get_reference_order
end
# Create an instance of the cite function and get_reference_order function
cite, get_references = create_cite_function()
end;
# ╔═╡ b285e84c-6321-4d22-b4d4-28f830861ed3
@mdx """
Another reference [$(cite("julia"))](#references). You have to modify the `references` dictionary in the [references](#references) section to add new entries. Then create a markdown link and use the `cite` function, for example:
```
[\$(cite("my_ref"))](#references)
```
!!! note
You need to use the `@mdx` macro from the `MarkdownLiterals.jl` package and you can only link to the `references` section header, not individual references
"""
# ╔═╡ 73cf6452-dd53-4bba-b870-88768cba897d
@mdx """
This is a reference [$(cite("turing"))](#references)
"""
# ╔═╡ c68f5c8c-6e7a-4372-b6b7-2c4753020146
get_references()
# ╔═╡ 1a5d9ad0-009b-11ee-36d7-31a7b1bdd551
md"""
## Packages
$(let
using Pkg: dependencies
function installed()
deps = dependencies()
installs = Dict{String, VersionNumber}()
for (uuid, dep) in deps
dep.is_direct_dep || continue
dep.version === nothing && continue
installs[dep.name] = dep.version
end
return installs
end
tb = "| Package | Version |\n| :-- | :-- |\n"
tb *= "| Julia | $VERSION |\n"
for (name, version) in installed()
tb *= "| $name | $version |\n"
end
Markdown.parse(tb)
end)
"""
# ╔═╡ 63255254-dc62-4d83-acaf-1302b1134716
md"""
### Configuration setup
"""
# ╔═╡ 2a1bace0-2530-4f40-b498-e63c3d6b91ae
begin
initialize_eqref()
ExtendedTableOfContents() # Uses PlutoExtras.jl
end
# ╔═╡ a5ff7542-e2a1-4ffe-9861-c285afd2de7f
md"""
### Plotting backend setup
"""
# ╔═╡ 48e99049-4774-465c-add1-bebd34dab60c
plotly(size=(675,400),
foreground_color_legend = nothing);
# ╔═╡ 00000000-0000-0000-0000-000000000001
PLUTO_PROJECT_TOML_CONTENTS = """
[deps]
MarkdownLiteral = "736d6165-7244-6769-4267-6b50796e6954"
Plots = "91a5bcdd-55d7-5caf-9e0b-520d859cae80"
PlutoExtras = "ed5d0301-4775-4676-b788-cf71e66ff8ed"
PlutoUI = "7f904dfe-b85e-4ff6-b463-dae2292396a8"
ShortCodes = "f62ebe17-55c5-4640-972f-b59c0dd11ccf"
[compat]
MarkdownLiteral = "~0.1.1"
Plots = "~1.38.17"
PlutoExtras = "~0.7.8"
PlutoUI = "~0.7.52"
ShortCodes = "~0.3.5"
"""
# ╔═╡ 00000000-0000-0000-0000-000000000002
PLUTO_MANIFEST_TOML_CONTENTS = """
# This file is machine-generated - editing it directly is not advised
julia_version = "1.9.2"
manifest_format = "2.0"
project_hash = "f5eda61e50fffc87d65d98c9bae275d466a0616a"
[[deps.AbstractPlutoDingetjes]]
deps = ["Pkg"]
git-tree-sha1 = "91bd53c39b9cbfb5ef4b015e8b582d344532bd0a"
uuid = "6e696c72-6542-2067-7265-42206c756150"
version = "1.2.0"
[[deps.ArgTools]]
uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f"
version = "1.1.1"
[[deps.Artifacts]]
uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33"
[[deps.Base64]]
uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f"
[[deps.BitFlags]]
git-tree-sha1 = "43b1a4a8f797c1cddadf60499a8a077d4af2cd2d"
uuid = "d1d4a3ce-64b1-5f1a-9ba4-7e7e69966f35"
version = "0.1.7"
[[deps.Bzip2_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
git-tree-sha1 = "19a35467a82e236ff51bc17a3a44b69ef35185a2"
uuid = "6e34b625-4abd-537c-b88f-471c36dfa7a0"
version = "1.0.8+0"
[[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"
uuid = "83423d85-b0ee-5818-9007-b63ccbeb887a"
version = "1.16.1+1"
[[deps.CodecZlib]]
deps = ["TranscodingStreams", "Zlib_jll"]
git-tree-sha1 = "02aa26a4cf76381be7f66e020a3eddeb27b0a092"
uuid = "944b1d66-785c-5afd-91f1-9de20f533193"
version = "0.7.2"
[[deps.ColorSchemes]]
deps = ["ColorTypes", "ColorVectorSpace", "Colors", "FixedPointNumbers", "PrecompileTools", "Random"]
git-tree-sha1 = "d9a8f86737b665e15a9641ecbac64deef9ce6724"
uuid = "35d6a980-a343-548e-a6ea-1d62b119f2f4"
version = "3.23.0"
[[deps.ColorTypes]]
deps = ["FixedPointNumbers", "Random"]
git-tree-sha1 = "eb7f0f8307f71fac7c606984ea5fb2817275d6e4"
uuid = "3da002f7-5984-5a60-b8a6-cbb66c0b333f"
version = "0.11.4"
[[deps.ColorVectorSpace]]
deps = ["ColorTypes", "FixedPointNumbers", "LinearAlgebra", "Requires", "Statistics", "TensorCore"]
git-tree-sha1 = "a1f44953f2382ebb937d60dafbe2deea4bd23249"
uuid = "c3611d14-8923-5661-9e6a-0046d554d3a4"
version = "0.10.0"
[deps.ColorVectorSpace.extensions]
SpecialFunctionsExt = "SpecialFunctions"
[deps.ColorVectorSpace.weakdeps]
SpecialFunctions = "276daf66-3868-5448-9aa4-cd146d93841b"
[[deps.Colors]]
deps = ["ColorTypes", "FixedPointNumbers", "Reexport"]
git-tree-sha1 = "fc08e5930ee9a4e03f84bfb5211cb54e7769758a"
uuid = "5ae59095-9a9b-59fe-a467-6f913c188581"
version = "0.12.10"
[[deps.CommonMark]]
deps = ["Crayons", "JSON", "PrecompileTools", "URIs"]
git-tree-sha1 = "532c4185d3c9037c0237546d817858b23cf9e071"
uuid = "a80b9123-70ca-4bc0-993e-6e3bcb318db6"
version = "0.8.12"
[[deps.Compat]]
deps = ["UUIDs"]
git-tree-sha1 = "e460f044ca8b99be31d35fe54fc33a5c33dd8ed7"
uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
version = "4.9.0"
weakdeps = ["Dates", "LinearAlgebra"]
[deps.Compat.extensions]
CompatLinearAlgebraExt = "LinearAlgebra"
[[deps.CompilerSupportLibraries_jll]]
deps = ["Artifacts", "Libdl"]
uuid = "e66e0078-7015-5450-92f7-15fbd957f2ae"
version = "1.0.5+0"
[[deps.ConcurrentUtilities]]
deps = ["Serialization", "Sockets"]
git-tree-sha1 = "5372dbbf8f0bdb8c700db5367132925c0771ef7e"
uuid = "f0e56b4a-5159-44fe-b623-3e5288b988bb"
version = "2.2.1"
[[deps.Contour]]
git-tree-sha1 = "d05d9e7b7aedff4e5b51a029dced05cfb6125781"
uuid = "d38c429a-6771-53c6-b99e-75d170b6e991"
version = "0.6.2"
[[deps.Crayons]]
git-tree-sha1 = "249fe38abf76d48563e2f4556bebd215aa317e15"
uuid = "a8cc5b0e-0ffa-5ad4-8c14-923d3ee1735f"
version = "4.1.1"
[[deps.DataAPI]]
git-tree-sha1 = "8da84edb865b0b5b0100c0666a9bc9a0b71c553c"
uuid = "9a962f9c-6df0-11e9-0e5d-c546b8b5ee8a"
version = "1.15.0"
[[deps.DataStructures]]
deps = ["Compat", "InteractiveUtils", "OrderedCollections"]
git-tree-sha1 = "3dbd312d370723b6bb43ba9d02fc36abade4518d"
uuid = "864edb3b-99cc-5e75-8d2d-829cb0a9cfe8"
version = "0.18.15"
[[deps.Dates]]
deps = ["Printf"]
uuid = "ade2ca70-3891-5945-98fb-dc099432e06a"
[[deps.DelimitedFiles]]
deps = ["Mmap"]
git-tree-sha1 = "9e2f36d3c96a820c678f2f1f1782582fcf685bae"
uuid = "8bb1440f-4735-579b-a4ab-409b98df4dab"
version = "1.9.1"
[[deps.DocStringExtensions]]
deps = ["LibGit2"]
git-tree-sha1 = "2fb1e02f2b635d0845df5d7c167fec4dd739b00d"
uuid = "ffbed154-4ef7-542d-bbb7-c09d3a79fcae"
version = "0.9.3"
[[deps.Downloads]]
deps = ["ArgTools", "FileWatching", "LibCURL", "NetworkOptions"]
uuid = "f43a241f-c20a-4ad4-852c-f6b1247861c6"
version = "1.6.0"
[[deps.ExceptionUnwrapping]]
deps = ["Test"]
git-tree-sha1 = "e90caa41f5a86296e014e148ee061bd6c3edec96"
uuid = "460bff9d-24e4-43bc-9d9f-a8973cb893f4"
version = "0.1.9"
[[deps.Expat_jll]]
deps = ["Artifacts", "JLLWrappers", "Libdl"]
git-tree-sha1 = "4558ab818dcceaab612d1bb8c19cee87eda2b83c"
uuid = "2e619515-83b5-522b-bb60-26c02a35a201"
version = "2.5.0+0"
[[deps.FFMPEG]]
deps = ["FFMPEG_jll"]
git-tree-sha1 = "b57e3acbe22f8484b4b5ff66a7499717fe1a9cc8"
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"]
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