The Nextjournal Julia Environment

using Plots

# define the Lorenz attractor
mutable struct Lorenz
    dt; σ; ρ; β; x; y; z
end

function step!(l::Lorenz)
    dx = l.σ*(l.y - l.x)       ; l.x += l.dt * dx
    dy = l.x*(l.ρ - l.z) - l.y ; l.y += l.dt * dy
    dz = l.x*l.y - l.β*l.z     ; l.z += l.dt * dz
end

attractor = 
  Lorenz((dt = 0.02, σ = 10., ρ = 28., β = 8//3, x = 1., y = 1., z = 1.)...)

# initialize a 3D plot with 1 empty series
plt = plot3d(1, xlim=(-25,25), ylim=(-25,25), zlim=(0,50),
             title = "Lorenz Attractor", marker = 2)

# build an animated gif by pushing new points to the plot, saving every 10th frame
anim = @animate for i=1:1500
    step!(attractor)
    push!(plt, attractor.x, attractor.y, attractor.z)
end every 10

gif(anim,"/results/anim.gif")

plotly(lw=3)
x = -100:100

Plots.plot(x, 100x.^2)
Plots.plot!(x, x.^3 - x.^2)

using Makie, LinearAlgebra

n = 20
f   = (x,y,z) -> x*exp(cos(y)*z)
∇f  = (x,y,z) -> Point3f0(exp(cos(y)*z), -sin(y)*z*x*exp(cos(y)*z), x*cos(y)*exp(cos(y)*z))
∇ˢf = (x,y,z) -> ∇f(x,y,z) - Point3f0(x,y,z)*dot(Point3f0(x,y,z), ∇f(x,y,z))

θ = [0;(0.5:n-0.5)/n;1]
φ = [(0:2n-2)*2/(2n-1);2]
x = [cospi(φ)*sinpi(θ) for θ in θ, φ in φ]
y = [sinpi(φ)*sinpi(θ) for θ in θ, φ in φ]
z = [cospi(θ) for θ in θ, φ in φ]

pts = vec(Point3f0.(x, y, z))
∇ˢF = vec(∇ˢf.(x, y, z)) .* 0.1f0
Makie.surface(x, y, z, resolution = (800,800))
arrows!(pts, ∇ˢF, arrowsize = 0.03, linecolor = (:white, 0.6), linewidth = 3)

using HDF5

# Some methods to traverse the first path in an h5 file.
dd(node::HDF5File) = dd(node[names(node)[1]])
dd(node::HDF5Group) = dd(node[names(node)[1]])
dd(node::HDF5Dataset) = node

dspath = h5open(
NEONDSTowerTemperatureData.hdf5
) do h5
  name(dd(h5))
end
print("First path: $dspath.")

data = h5read(
NEONDSTowerTemperatureData.hdf5
, dspath)

using Plots

Plots.plot([x.data[1] for x in data],[y.data[3] for y in data],
  xrotation=45,legend=:none)

using JLD

struct testData
  x::Int64
  y::String
end

foo = testData(7,"test")

save("/tmp/blah.jld", "foo", foo)
load("/tmp/blah.jld")

using FileIO

load(File(format"CSV",
iris.csv
))

using DataFrames

df = DataFrame(A = 1:5, B = 1:2:10, C = ["a","b","c","d","q"])

df[:A] + df[Symbol("B")]

json(["foo", Dict("bar" => ("baz", nothing, 1.0, 2))])

tarArch='x86_64'
dirArch='x64'
JULIA_VERSION_SHORT=${JULIA_VERSION/-rc/}
FILENAME="julia-${JULIA_VERSION}-linux-${tarArch}.tar.gz"
FILEURL="https://julialang-s3.julialang.org/bin/linux/${dirArch}/${JULIA_VERSION_SHORT%[.-]*}/${FILENAME}"

echo "Downloading ${FILEURL}."

curl -fL -o julia.sha256 \
  "https://julialang-s3.julialang.org/bin/checksums/julia-${JULIA_VERSION}.sha256"
curl -fL -o julia.tar.gz.asc "${FILEURL}.asc"
curl -fL -o julia.tar.gz "${FILEURL}"

echo `grep $FILENAME julia.sha256 | cut -d " " -f1` > j256sig

sha256=`cat j256sig`
echo "${sha256} *julia.tar.gz" | sha256sum -c -

export GNUPGHOME="$(mktemp -d)"
JULIA_GPG="3673DF529D9049477F76B37566E3C7DC03D6E495"
gpg --keyserver ha.pool.sks-keyservers.net --recv-keys "$JULIA_GPG"
gpg --batch --verify julia.tar.gz.asc julia.tar.gz
command -v gpgconf > /dev/null && gpgconf --kill all
rm -rf "$GNUPGHOME" julia.tar.gz.asc julia.sha256

mkdir -p "$JULIA_PATH"
tar -xzf julia.tar.gz -C "$JULIA_PATH" --strip-components 1
rm julia.tar.gz j256sig

julia -v

julia -E 'using Pkg

pkg"update"
pkg"add JSON"
pkg"build"
pkg"precompile"'

"$VERSION"

apt-get -qq update
apt-get install --no-install-recommends \
  imagemagick libhdf5-dev hdf5-tools mesa-utils \
  build-essential gfortran cmake automake libtool libltdl-dev pkg-config \
  libxt6 libxrender1 libgl1-mesa-glx libqt5widgets5 `# for GR` \
  libhttp-parser2.7.1 `# for PlotlyJS` \
  libxrandr-dev libxinerama-dev libxcursor-dev libglfw3-dev `# for Makie`
apt-get clean
rm -r /var/lib/apt/lists/* # Clear package list so it isn't stale

IDIR="/usr/local/ffmpeg"

mkdir -p $IDIR
cd $IDIR

tar -Jxf 
ffmpeg-release-amd64-static.tar.xz
 --strip 1

for ex in $IDIR/{ffmpeg,ffmpeg-10bit,ffprobe,qt-faststart}; do
  ln -s $ex /usr/local/bin/
done

using Pkg

pkg"update"
pkg"add SoftGlobalScope DataFrames JLD CSV CSVFiles Netpbm NRRD MeshIO HDF5 MAT FileIO JSExpr CSSUtil StatsBase StatsPlots Observables Interact WebSockets HTTP Blink WebIO PlotlyBase PlotlyJS RecipesBase GR Plots ImageCore ImageShow ImageMagick Colors BenchmarkTools FixedPointNumbers AbstractPlotting#master GLMakie#master Makie#master IJulia"

pkg"build"

pkg"precompile"

using SoftGlobalScope, DataFrames, JLD, CSV, CSVFiles, Netpbm, NRRD, MeshIO, HDF5, MAT, FileIO, JSExpr, CSSUtil, StatsBase, StatsPlots, Observables, Interact, WebSockets, HTTP, Blink, WebIO, PlotlyBase, PlotlyJS, RecipesBase, GR, Plots, ImageCore, ImageShow, ImageMagick, Colors, Makie, BenchmarkTools, FixedPointNumbers, IJulia

IJulia.verbose

"$(Pkg.installed()["SoftGlobalScope"])"

"$(Pkg.installed()["GR"])"

"$(Pkg.installed()["PlotlyBase"])"

"$(Pkg.installed()["PlotlyJS"])"

"$(Pkg.installed()["Plots"])"

"$(Pkg.installed()["Makie"])"

"$(Pkg.installed()["JLD"])"

"$(Pkg.installed()["CSV"])"

"$(Pkg.installed()["HDF5"])"

"$(Pkg.installed()["JSON"])"

"$(Pkg.installed()["FileIO"])"

"$(Pkg.installed()["DataFrames"])"

"$VERSION"

using Pkg

pkg"update"
pkg"add SoftGlobalScope DataFrames JLD CSV CSVFiles Netpbm NRRD MeshIO HDF5 MAT FileIO JSExpr CSSUtil StatsBase StatsPlots Observables Interact WebSockets HTTP Blink WebIO PlotlyBase PlotlyJS RecipesBase GR Plots#v0.19.3 ImageCore ImageShow ImageMagick Colors BenchmarkTools FixedPointNumbers AbstractPlotting GLMakie Makie IJulia"

pkg"build"

pkg"precompile"

using SoftGlobalScope, DataFrames, JLD, CSV, CSVFiles, Netpbm, NRRD, MeshIO, HDF5, MAT, FileIO, JSExpr, CSSUtil, StatsBase, StatsPlots, Observables, Interact, WebSockets, HTTP, Blink, WebIO, PlotlyBase, PlotlyJS, RecipesBase, GR, Plots, ImageCore, ImageShow, ImageMagick, Colors, BenchmarkTools, FixedPointNumbers, Makie, IJulia

IJulia.verbose