Documentation

Welcome to the IT4Innovations documentation pages. The IT4Innovations national supercomputing center operates the supercomputers Salomon and Anselm. The supercomputers are available to the academic community within the Czech Republic and Europe, and the industrial community worldwide. The purpose of these pages is to provide comprehensive documentation of the hardware, software and usage of the computers.

How to Read the Documentation

  1. Read the list in the left column. Select the subject of interest. Alternatively, use the Search tool in the upper right corner.
  2. Scan for all the notes and reminders on the page.
  3. Read the details if still more information is needed. Look for examples illustrating the concepts.

Getting Help and Support

Note

Contact support[at]it4i.cz for help and support regarding the cluster technology at IT4Innovations. Please use Czech, Slovak or English language for communication with us. Follow the status of your request to IT4Innovations at support.it4i.cz/rt.

Use your IT4Innovations username and password to log in to the support portal.

Required Proficiency

Note

You need basic proficiency in Linux environments.

In order to use the system for your calculations, you need basic proficiency in Linux environments. To gain this proficiency we recommend you read the introduction to Linux operating system environments, and install a Linux distribution on your personal computer. A good choice might be the CentOS distribution, as it is similar to systems on the clusters at IT4Innovations. It's easy to install and use. In fact, any Linux distribution would do.

Note

Learn how to parallelize your code!

In many cases, you will run your own code on the cluster. In order to fully exploit the cluster, you will need to carefully consider how to utilize all the cores available on the node and how to use multiple nodes at the same time. You need to parallelize your code. Proficieny in MPI, OpenMP, CUDA, UPC or GPI2 programming may be gained via training provided by IT4Innovations.

Terminology Frequently Used on These Pages

  • node: a computer, interconnected via a network to other computers - Computational nodes are powerful computers, designed for, and dedicated to executing demanding scientific computations.
  • core: a processor core, a unit of processor, executing computations
  • core-hour: also normalized core-hour, NCH. A metric of computer utilization, see definition.
  • job: a calculation running on the supercomputer - the job allocates and utilizes the resources of the supercomputer for certain time.
  • HPC: High Performance Computing
  • HPC (computational) resources: corehours, storage capacity, software licences
  • code: a program
  • primary investigator (PI): a person responsible for execution of computational project and utilization of computational resources allocated to that project
  • collaborator: a person participating in the execution of a computational project and utilization of computational resources allocated to that project
  • project: a computational project under investigation by the PI - the project is identified by the project ID. Computational resources are allocated and charged per project.
  • jobscript: a script to be executed by the PBS Professional workload manager

Conventions

In this documentation, you will find a number of pages containing examples. We use the following conventions:

Cluster command prompt

$

Your local linux host command prompt

local $

Errors

Although we have taken every care to ensure the accuracy of the content, mistakes do happen. If you find an inconsistency or error, report it by visiting http://support.it4i.cz/rt, creating a new ticket, and entering the details. By doing so, you can save other readers from frustration and help us improve.

Tip

We will fix the problem as soon as possible.