1. ISG We build general capability Introduction to Olympus Shawn T. Brown, PhD ISG MISSION 2.0 Lead Director of Public Health Applications Pittsburgh Supercomputing Center

2. ISG We build general capability Questions to answer What is Olympus? Why do I need Olympus? How do I and my group get access to Olympus? How do I use Olympus? What will I learn in the hands-on training?

3. ISG We build general capability RAM Disk Some common terms... Core – a single processing unit capable of performing computations. Multicore Processor – a unit that contains two or more independent cores Socket – place where a multicore processor is plugged in and connects to other resources in the computer Node – collection of sockets and share a common memory space Cluster – a collection of nodes connected through an external network

4. ISG We build general capability What is Olympus? It is a cluster (1536 cores, 7.5 TB of RAM) 24 nodes (64 cores each) 4 sockets AMD multicore processor 16 cores (1.4 GHz) 512 GB of RAM (8 Nodes) 256 GB of RAM (16 Nodes) Local 3TB hard disk Nodes connected to each other by Gigabit Ethernet Shared file System (2TB) Upgraded Q1 2015 with ~50 TB file system Many software packages currently available E.g. Python, R, gcc, FRED, FluTE New software can be installed by request

5. ISG We build general capability Why do I need Olympus? I can do more work, more quickly. More capacity allows for more simulation runs 1 million county level influenza simulations per day 100,000 state level influenza simulations per day I can do larger work. Large memory nodes allow bigger simultaneous simulation runs 28-300 national level influenza simulations per day I can work more efficiently and effectively. Queuing system allows setting up large batches of runs through scripting rather than manual input creation Support from PSC/ISG staff to help you work more efficiently.

6. ISG We build general capability How do I get access to Olympus? Can I get an account? Anyone doing MIDAS related research can get an account on Olympus. How? Request an account through the MIDAS Portal http://www.epimodels.org/drupal/?q=node/480 I have an account, now what do I do? You can access the machine through ssh at the address olympus.psc.edu. What does an account get me? Home directory for storing files Ability to submit work to the machine Support if you run into trouble and/or need software installed Consultation for working more efficiently and effectively

7. ISG We build general capability How do I use Olympus? When you log onto the machine, you will be on the head node. A limited machine that allows you to interact with the full cluster. What should I do on the head node? Manage your files Setup work that you plan to submit to the machine How I do I actually run a job on Olympus? Jobs will need to be submitted to a queuing system which will put the work in line for execution when resources are available.

8. ISG We build general capability ssh How do I use Olympus? What is a queuing system? Software allowing users to submit work on a multiuser machine by scheduling work on machine and running when the resources are available. How do I use the queuing system? Prepare the work you want to do on the head node Create a submission script Defines the work to be accomplished Defines the resources needed to accomplish the work (e.g. how many cores do I need) Submit the work to the queue Check status of the job (queued, running, done) Work will run when the resources are available When finished, collect results on the head node I want to run simulations. I am going to create a whole lot of inputs to run. I need 32 cores, 128 GB of RAM and 2 hours of time. Head Node Olympus Cluster PBS / TORQUE Queuing System WORK Inputs Queued Running Output Wow, I got a lot of work done! I am going to go get coffee. Done

9. ISG We build general capability What will I learn in the hands- on? Logging on to Olympus How do I create a submission script? How do I submit and monitor work through the queuing system? Further information about the machine to help you effectively and efficiently use the resource.