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--- modules [2022/03/07 13:51] – created nico
+++ modules [2022/03/23 11:47] (current) – nico
@@ Line 1: / Line 1: @@
-Environement modules are used to define environment variables for applications available on Magi. Formerly, we used **lmod**. We moved to **environment modules** in the current version of Magi. All modules are stored in /softs/modules.
+====== Environment Modules ======
+Environment modules are used to define environment variables for applications available on Magi. Formerly, we used **lmod**. We moved to **environment modules** in the current version of Magi. All modules are stored in /softs/modules.
 In this directory, we find 4 subdirectories :
@@ Line 5: / Line 7: @@
   * slurm : SLURM job scheduler module
   * packages : Pre-compiled softwares (such as Matlab, CPLEX etc.)
-  * compiled : Compiled software
+  * compiled : Compiled software (such as OpenMPI, VASP etc.)
+The **compiled** subdirectory reflects the way the software has been built. For instance, we have OpenMPI module located in gcc/10.2.1/openmpi/4.1.2 it means that OpenMPI version 4.1.2 has been compiled with gcc version 10.2.1.
+To enable a module, for example OpenMPI, you use the **module** command with **load** :
+   nicolas.greneche@magi3:~$ module load /softs/modules/compiled/gcc/10.2.1/openmpi/4.1.2
+To list loaded modules :
+   nicolas.greneche@magi3:~$ module list
+   Currently Loaded Modulefiles:
+) /softs/modules/slurm/21.08.5   2) /softs/modules/compiled/gcc/10.2.1/openmpi/4.1.2
+To see all available modules :
+   nicolas.greneche@magi3:~$ module av
+   ------------------------------------------- /softs/modules/slurm -------------------------------
+.08.5
+   ------------------------------------------- /softs/modules/compiled ----------------------------
+   gcc/10.2.1/openmpi/4.1.2(default)
+   ...
+And to unload a module :
+   nicolas.greneche@magi3:~$ module unload /softs/modules/compiled/gcc/10.2.1/openmpi/4.1.2
+The module is unloaded :
+   nicolas.greneche@magi3:~$ module list
+   Currently Loaded Modulefiles:
+) /softs/modules/slurm/21.08.5
+====== Upgrade from lmod to environment modules ======
+You should modify your .bashrc to switch from **lmod** to **environement modules**. The .bashrc is located at the root of your home directory. For example, my .bashrc is in /home/dist/nicolas.greneche/.bashrc. For **lmod** you may find a section that looks like this :
+   if [ -z "$BASHRC_READ" ]; then
+      export BASHRC_READ=1
+      module use /softs/modulefiles/Compiler
+      module use /softs/modulefiles/Core
+      module use /softs/modulefiles/MPI
+      #Eventually, custom modules
+   fi
+You should replace this section with this one below :
+   if [ -f /etc/profile.d/modules.sh ]
+   then
+      source /etc/profile.d/modules.sh
+      export MODULEPATH=/softs/modules/slurm:/softs/modules/compiled:/softs/modules/intel:/softs/modules/packages
+      # Enable some modules here
+      module load /softs/modules/slurm/default
+   fi
-The
+Then, you disconnect and reconnect to Magi and you should use **environment modules**.