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Getting Started at PDC

Information for new users of PDC systems

Getting help

There are many ways to get help using PDC systems. The best is normally using email. Please provide as much information about the problem as you can, as you will get a faster, and more useful response.

User account and Time allocation

Using PDC systems is free for all Swedish academic users and their collaborators - we are funded centrally - but before you can run on PDC systems you will need two things

  1. An account on PDC systems
  2. To be a member of a time allocation at PDC

SUPR

SUPR is the SNIC database containing information about users and projects. If your PDC account is linked to your SUPR account then many things can be done automatically. If you want to run on SNIC funded resource (currently Beskow and Tegnér) it is very important that your SUPR account is linked to your PDC account as those allocations are managed in SUPR.

Information on PDC systems

At PDC we run various systems with different intended usages. Your account will only be activated on a machine where you have an active time allocation (note most Beskow users also get access to Tegnér for pre and post processing).

  1. Beskow - the main computer at PDC. Optimised for large parallel jobs.
  2. Tegner - Intended for general use, e.g. pre/post processing, GPU work etc.

Connecting (logging in) to PDC systems

Once you have your account PDC you need to connect to PDC machines. This works differently to many other systems so please read the instructions on how to connect carefully. The instructions vary depending on which operating system is used.

If you have login problems and are connecting from Linux or Apple computers, please read the troubleshooting guide for Linux and Apple computers.

Running at PDC

General instructions

Changing your password

Getting a new password

The SLURM queue system

Machine specific instructions

Each machine has specific instructions, which give some guildelines on how to use the machine.

Available Software

At PDC we maintain a list of software that is installed on the various machines. Instructions on how to use the software at PDC can also be found using the links in the software name.

System problems

From time to time there are problems with PDC systems. Current problems can be found on the system alerts page. These alerts are also sent to the flash news mailing list, which is sent to all subscribers. Instructions on subscribing to the system alerts mailing list.

Storing Data at PDC

There are two main places to store data at PDC.

  1. AFS
  2. Cluster file system (e.g. klemming)

AFS is intended for small amounts of data that is then backed up. AFS works quite differently from the "normal" UFS file systems you may have used previously. Please read the AFS instructions carefully. AFS is a shared file system and is mounted almost everywhere. It can also be accessed from any machine world wide without logging into PDC machines using an appropriate AFS client. By default you are only given 500 MB of AFS storage, this can be increased to 5GB by asking PDC support. If you need more then you need to fill in the form to request more AFS storage.

The cluster file systems such as /cfs/klemming are much larger file systems, but not currently mounted on all machines. Note NONE of /cfs/klemming is backed up, and /cfs/klemming/scratch is regularly cleaned, and not intended for storage of files. More information on the cluster file systems. Note Klemming is not intended for long term storage of files  - only files needed by, or were recently produced by, jobs running on PDCs compute resources should be on Klemming.

Transferring data to and from PDC systems

There are several methods for transferring data between your local system and PDC systems.

  1. Using an AFS client
  2. Using scp - in general you should connect to a transfer node rather than connecting to the machines directly when using this method.

Mailing lists

PDC has two main mailing lists which can be subscribed to by users

Additional Information

Information on the PDC environment

Introduction to Linux