Cluster login

About your "omica" cluster

"omica" is a small cluster, with master and login node 'omica', 30 processing nodes, named nodo1, nodo2, ..., nodo30 and a distributed file storage with lustre filesystem, mounted on /LUSTRE mount point.

Jobs management and scheduler is slurm software.

For this course, we will be installing all software into:

 /LUSTRE/apps/workshop

and will keep test data in:

/LUSTRE/bioinformatica_data/bioinformatica2018

Logging In

If you're on a windows machine, open PUTTY and log into the omica cluster:

ip: 158.97.9.9
port: 22

You will need to enter your password.

If you have a mac, log in via ssh instead:

ssh <usuario>@omica.cicese.mx

You will need to enter your password.

Working on the cluster

After logging in, make sure to switch to a node:

~/.works18

Your prompt should now look like this: [<usuario>@nodo11]

Now, to enter our conda environment, run:

source activate tara

Setting up the environment

To set up the software we have previously installed you'll need to execute the following:

echo 'export PATH=/LUSTRE/apps/workshop/miniconda3/bin:$PATH' >> ~/.bashrc
echo 'export PATH=/LUSTRE/apps/workshop/transrate-1.0.3-linux-x86_64:$PATH' >> ~/.bashrc
source ~/.bashrc

Future Cluster Use

Normally, apps are installed on: /LUSTRE/apps and /LUSTRE/bioinformatica

Working directories are created by each user on; /LUSTRE/bioinformatica_data/"group_subdirectory"