Computers Basel 2016

Biozentrum

Use the credentials from your credential handout to log into the Mac workstations.

Opening Matlab

We will be using the Matlab release R2015b. It should be visible on the desktop, otherwise use Spotlight (the magnifying glass on the top right corner) to locate it.

Installing Dynamo

A package can be found in /Users/gast/workshop2016/dynamo

Just unpack it with this command inside a terminal:

tar -xf  /Users/gast/workshop2016/dynamo/dynamo_temp_1.1.182.tar -C /Users/gast/workshop2016/dynamo

Opening Dynamo

After opening a Matlab session, you'll need to activate Dynamo in that session. Dynamo should be installed in /Users/gast/workshop2016/dynamo In order to activate your local Dynamo version, please type:

run /Users/gast/workshop2016/dynamo/dynamo_activate.m

Connecting to the instructors file share

Some files will be made available through a mounting the file system of the instructor's computer. You can mount this share by typing in Matlab

 run /Users/gast/mountData 

which will make the file share /Users/gast/mountedData visible in your workstation.

CSCS: Lugano

CSCS Lugano is the Nacional Supercomputing Center of Switzerland. Each account should be able to submit jobs to a single node connected to a K20 GPU and four cores.

Connecting

First you need to connect to the gate node ela using your cscs credentials from the credentials handout.

ssh -Y stud01@ela.cscs.ch

and then you can connect to the computing machine called daint, again you will be requested to type in your credentials.

stud01@ela2:~> ssh -Y daint

Strubi Oxforfd

We are also using some accounts from the GPU cluster in the Structural Biology department in the University of Oxford.