Getting an account

First, you need to get an account from NOTUR, the webpage for you request is : ​https://www.metacenter.no/user/application/form/notur/.

ssh configuration

You can add the following lines to ~/.ssh/config on your local machine:

Host vilje vilje.hpc.ntnu.no
    HostName vilje.hpc.ntnu.no
    User YOURVILJEUSERNAME

and replace YOURVILJEUSERNAME by your vilje username.

Once this is done, you can ssh vilje by simply doing:

ssh vilje

Password-less ssh

Once you have the account, you can setup a public key authentification in order to avoid having to input your password for each run. You need to have a SSH public/private key pair. If you do not, you can create a SSH public/private key pair by typing the following command and following the prompts (no passphrase necessary):

$your_localhost% ssh-keygen -t rsa
Generating public/private rsa key pair.
Enter file in which to save the key (/Users/username/.ssh/id_rsa):RETURN
Enter passphrase (empty for no passphrase):RETURN
Enter same passphrase again:RETURN
Your identification has been saved in /Users/username/.ssh/id_rsa.
Your public key has been saved in /Users/username/.ssh/id_rsa.pub.

Two files were created: your private key /Users/username/.ssh/id_rsa, and the public key /Users/username/.ssh/id_rsa.pub. The private key is read-only and only for you, it is used to decrypt all correspondence encrypted with the public key. The contents of the public key need to be copied to ~/.ssh/authorized_keys on your vilje account:

$your_localhost%scp ~/.ssh/id_rsa.pub username@your_remosthost:~

Now on Vilje, copy the content of id_rsa.pub:

$your_remosthost%cat ~/id_rsa.pub >> ~/.ssh/authorized_keys
$your_remosthost%rm ~/id_rsa.pub

Environment

On Vilje, add the following lines to ~/.bashrc:

export ISSM_DIR=PATHTOTRUNK
#
module load intelcomp/13.0.1 mpt/2.06 petsc/3.4.1d
module load parmetis/4.0.2 mumps/4.10.0
module load automake

Log out and log back in to apply this change.

Installing ISSM on Vilje

You can check out ISSM and install m1qn3. This is the only package we will install, the module loaded from your bashrc are taking care of the rest.

Use the following configuration script (adapt to your needs):

#!/bin/sh                                                                                                                                                       
./configure \
    --prefix=$ISSM_DIR \
    --without-kriging \
    --with-wrappers=no \
    --with-petsc-dir="/sw/sdev/Modules/petsc/petsc-3.4.1" \
    --with-mpi-include="/sw/sgi/mpt/mpt-2.06/include/"  \
    --with-mpi-libflags="-L/sw/sgi/mpt/mpt-2.06/lib -lmpi -lmpi++" \
    --with-metis-dir="/sw/sdev/Modules/parmetis/parmetis-4.0.2/include" \
    --with-mumps-dir="/sw/sdev/Modules/mumps/mumps-4.10.0" \
    --with-cxxoptflags="-O2 -xAVX" \
    --with-m1qn3-dir="$ISSM_DIR/externalpackages/m1qn3/install" \
    --enable-development

hexagon_settings.m

TO BE DONE function of hexagon.py