docker-JuliaPro/README.md

JuliaPro Docker Image

Remember that clunky Atom-based Julia distribution that gave Julia LTS a UI and debugger similar to Matlab and already included all the packages you could possibly think to use? Remember JuliaPro?

This is JuilaPro in a Docker image¹.

Usage

The image is hosted on Docker Hub, Quay, and the GitHub Container Registry, and is compatible with Docker, Podman, and Singularity/Apptainer, and probably others.

docker pull millironx/juliapro:latest
podman pull quay.io/millironx/juliapro:latest
singularity pull docker://ghcr.io/millironx/juliapro:latest

The packages are installed in a depot in /usr/local/share/julia, so keep this in mind when overwriting the JULIA_DEPOT_PATH variable. For more information on the rationale for this and examples, see

• nf-core tools discussion: https://github.com/nf-core/tools/pull/1317
• Alex Peltzer's blog: https://apeltzer.github.io/post/03-julia-lang-nextflow

Included Packages

The following packages were included in JuliaPro as of April 26, 2020 according to the Wayback Machine. A checkmark indicates the package was included in this image, clear boxes indicate that it couldn't be included. I've included several other packages that I consider essential today at the bottom of the list.

General Programming

• DataStructures
• LightGraphs
• Atom (Interop meaningless in container)
• JuliaWebAPI
• IJulia (Soft dependency on Python, which isn't included in the container)
• Nettle
• DSP
• NearestNeighbors
• Parameters
• ParserCombinator
• Libz
• BenchmarkTools
• Rebugger (Errors on precompilation)
• Debugger

General Math

• Calculus
• DataFrames
• StatsBase
• Distributions
• HypothesisTests
• GLM
• OnlineStats
• DifferentialEquations
• SymPy (No Python in container)
• KernelDensity
• Zygote

Optimization

• Optim
• Roots

Databases

• JDBC

Building UIs and Visualization

• PyPlot (No Python in container)
• Interact
• LaTeXStrings
• Formatting
• Images
• Plots
• GR
• UnicodePlots
• ImageMagick
• StatsPlots
• PGFPlots

Deep Learning and Machine Learning

• Knet
• Clustering
• DecisionTree
• MLBase
• Flux
• TensorFlow (Dependency conflict with Flux: opted for Flux over TensorFlow)
• Metalhead
• ScikitLearn (No Python in container)

Interoperability with Other Languages

All interoperability has been lost due to not including the other languages in this image.

• RCall (Interoperability with R)
• JavaCall (Java)
• PyCall (Python)
• Conda (Python dependencies)
• JuliaInXL (Microsoft Excel)

File and Data Formats

• JSON
• JLD2
• CSV
• LightXML
• StaticArrays
• ProtoBuf
• CuArrays (Package deprecated and depends on GPU hardware)

Economics and Finance

• QuantEcon
• BusinessDays
• Bloomberg (Empty package -- maybe proprietary?)
• Blpapi (Bloomberg connector) (Package unavailable)
• Miletus (Package old enough to require more downgrades than I'm comfortable with)

My Own Additions

• EzXML
• JSON3
• YAML
• NLsolve

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1. This image doesn't include Juno, just the curated packages. ↩︎