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https://github.com/bencardoen/singularity_julia

Template definition file for Singularity RO containers with Julia and user package embedded.

https://github.com/bencardoen/singularity_julia

Science Score: 13.0%

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Keywords

container definition-file hpc-clusters julia julia-language singularity singularity-container
Last synced: 5 months ago · JSON representation

Repository

Template definition file for Singularity RO containers with Julia and user package embedded.

Basic Info
  • Host: GitHub
  • Owner: bencardoen
  • License: agpl-3.0
  • Default Branch: main
  • Homepage:
  • Size: 18.6 KB
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  • Stars: 3
  • Watchers: 1
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Topics
container definition-file hpc-clusters julia julia-language singularity singularity-container
Created about 4 years ago · Last pushed about 4 years ago
Metadata Files
Readme License

README.md

README

Contains a template to create a Singularity Julia container with 1.7.1 on Fedora 35, with a user specified package pre-installed.

Use case : you're sharing private or public work but don't want your users to have to install Julia, deal with dependencies etc.

Usage

bash sudo singularity build myimage.sif singularity_template.def After creation: bash singularity exec myimage.sif julia --project=/opt/MyPackage.jl

bash singularity shell myimage.sif Singularity>julia --project=/opt/MyPackage.jl

Notes

  • This sets the JULIADEPOTPATH variable (inside the container) to a container folder, to ensure we're using the environment inside the container, not outside. If you prefer to use the outside Julia env, remove the depot path steps, but note this will write to ~/.julia.
  • Julia interactive use will write to logs, in order to enable this without making the container writable, we map the log directory to /dev/shm (tmpfs on Linux), which by POSIX should exist and be user writable. For execution of scripts you do not need this, so you could omit it.

Customizing

Replace MyPackage.jl with your own package. Optionally add extra dependencies (dnf or conda, ...).

Owner

  • Name: Ben Cardoen
  • Login: bencardoen
  • Kind: user
  • Location: Vancouver
  • Company: https://github.com/sfu-mial

PhD Student Computing Science @sfu-mial Simon Fraser University

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