Module

why module

• The softwares evolve very quickly in bioinformatics.
• The new versions give not always the same results.
• We need to have several versions installed at the same time.

what is module

• module allow to load dynamically a package with a specified version on demand.
• module modify the environment dynamically.

what is available

To know what package are available:

• module av display all available packages.
• module av bla display all available packages begining by bla

do a program available

• module load package/vers load the package.
• module list list all packages loaded in the environment.
• module unload package/vers unload a package.
• module purge unload all loaded packages.

get help on a module

• module help package/vers display help about the package.

your own modulefiles

Why write your own modulefiles

• share controled environment among your workmates
• share coherent programs and alias among your workmates
• set up specific tools and pipelines with control
• see man modulefile for the syntax to use.

use your own private modulefiles

• place your modulefiles under ~/privatemodules
• module load use.own your modulefiles wil be available for all module commands

use shared private modulefiles

• place the modulefile under a directory with read permissions for all users you want to share.
• tell users to isue the command module use the given directory, they will gain acces to your modulefiles.

where is hide my program?

• whatprovides program list all package that provides the program.

exercises

• what modules provides blastp?
• load the right module.

module documentation

• https://projets.pasteur.fr/projects/modules/wiki