fedora-sc

A prebuilt cjr stack for scientific computing that is based on Fedora 34.

Description

This stack provides basic support for the following packages:

1. Languages
   • Python 3
   • c, c++
   • Fortran
   • Julia
   • Latex
2. Libraries
   • Matplotlib
   • BLAS, LAPACK
   • OPENMPI, mpi4py
   • X11
3. Dev Environments
   • Jupyter notebook, Jupyter lab
   • Theia
   • VS Code (through vnc)
   • vim, git, vim, emacs, tmux
4. Additional Software
   • tigervnc

When building, the image modifies the default container user so that id and group id match with the host.

Application configuration

The configurations for Jupyter, Theia, VSCode, and Tigervnc are respectively stored the directories config/jupyter, config/theia, config/vscode, and config/vnc which are bound to ~/.jupyter, ~/.theia, ~/.vscode, and ~/.vnc in the container. The stack comes preconfigured with Theia extensions for python, c/c++ and Fortran.

Python and Julia packages

Missing Python and Julia packages can be installed without modifying the underlying image.

Any python packages installed using pip install --user will be stored in the stack directory config/python3.9 (bound to /home/user/.local/lib/python3.9).
Any Julia packages installed with Pkg will be stored into the stack directory config/julia (bound to /home/user/.julia)

Remark: If the stack is used on remote resources, add the property remoteUpload: true (cjr 0.5.x) or removeBehavior: upload (cjr 0.6.0+) to the bound directories. Note that installing large packages or many small packages will increase job start times on remote resouces when uploading is enabled.

Installation

To use use this stack with cjr simply run the command

cjr stack:pull https://github.com/container-job-runner/fedora-sc.git

You can then build the stack by running

cjr stack:build fedora-sc

To run an interactive shell with this stack run

cjr shell --stack=fedora-sc