Home - gher-uliege/Documentation GitHub Wiki

Welcome to the GHER documentation wiki!

• DINEOF (Data Interpolating Empirical Orthogonal Functions): a tool for removing missing data in geophysical data sets
• DIVA (Data-Interpolating Variational Analysis): a spatial interpolation software
• DINCAE DINCAE (Data-Interpolating Convolutional Auto-Encoder) is a neural network to reconstruct missing data in satellite observations.

• Ocean Assimilation Kit: tool kit for ensemble and reduced-order assimilation
• Weakly Constrained Ensembles Method to create dynamically constrained ensemble perturbation for ensemble forecasts and data assimilation.

• Toolboxes and packages developped by the GHER are available at: https://github.com/gher-ulg/
• Matlab/Octave scripts: read/write GHER format + commands for figures.

• GHER3D Three dimensional primitive equation model

• Short guide on Julia
• Julia on CECI-HPC clusters
• Testing of Julia code

• Python: an object-oriented, multi-purpose language.
• matplotlib

Solvers for Ax = b where A is symmetric and positive definite.

Methods

• (preconditioned) conjugate gradient
• Cholesky decomposition
• Multigrid method

Software

• MUMPS
• SuiteSparse
• PETSc

• Octave: high-level interpreted language for scientific computing.
• JavaScript: dynamic programming language.
• R: statistical computing and graphic.
• Tcl/Tk: a scripting language for GUIs (among others).

Another set of tools useful in oceanography and numerical modeling.

• git, a distributed version control system
• Subversion (SVN), a version control system

• LaTeX, a document preparation system.
• Pandoc, a universal document converter.

• Impress: a javascript tool for presentations à la Prezi, but needs editing of hml5/css pages. Install on your machine if you want to be able to make presentations off-line.

• Linux tips: useful commands for particular tasks in Linux
• Debugging in LINUX/UNIX
• Debugging in Matlab/Octave
• Advanced Bash-Scripting Guide

• Google drive: useful when several simultaneous editors.
• DOX: storage service for the ULg staff.
• Dropbox: useful when having to share very large files, or to make a backup.
• ULg merci: in-house service; login necessary; especially useful for messages involving very large files.

• XMing: open-source alternative to x-win, remote x-windows over ssh
• NXclient: quicker than SSH, no need to have XWin, session management
• OPeNDAP How to use OPeNDAP
• Xvfb virtual X server

Note: if keyboard problem (e.g., azerty vs. qwerty), type

setxkbmap be

(where 'be' has to be changed accordingly to your keyboard)

You may also need to type

setxkbmap -model evdev -layout be

in order to avoid unwanted keyboard behavior (ex: upward arrow launches snapshot tool)

• Visualization and drawing
• Simple Linux Utility for Resource Management: SLURM
• Manipulations on pdf files: tools that allow for modifications on pdf files.
• Mathjax: a javascript collection to be able to use Latex formulas (including definition of functions) in html pages. Note that $ $ needs to be replaced by $$ in standard configurations. Install on your machine if you want to be able to make presentations off-line. If you want formulas font to herit styles, use something like

<script type="text/javascript" src="MathJax/MathJax.js?config=TeX-AMS-MML_HTMLorMML.js">
    </script>

NEMO installation