The ITP Compute Cluster REGULUS
Adapted from the cluster pages at http://www.uibk.ac.at/zid/systeme/hpc-systeme by courtesy of the HPC Team of the Central Information Technology Services (ZID).
System Features
The REGULUS Compute Cluster consists of one master node (regulus.uibk.ac.at) and 48 compute nodes (20 Intel Eight-Core & 4 Intel Ten-Core Xeon machines, 8 Intel Sixteen-Core Xeon and 16 Intel Xeon 20th-core machines with a total of 2592 cores) and offers brutto 10 TB attached storage.
The compute nodes are:
- node01 - node08: Two Twin²-Serverbarebones 2U Novarion Quanton Twin² 2200W High-Performance Server system with 4 nodes, each with two 20th-Core Intel Xeon Gold 6230 (2.1 GHz) processors (Cascade Lake-SP) and 192 GB DDR4 2933 GHz Reg. ECC RAM. The attached 1 TB SSD SATA-3 disk provides the local swap and /tmp file system.
- node09 - node28: 6 Twin²-Serverbarebones 2U transtec CALLEO High-Performance
- node29 - node32: One Twin²-Serverbarebone 2U transtec CALLEO High-Performance
- node33 - node40: Two Twin²-Serverbarebones 2U transtec CALLEO High-Performance
- node41 - node48: Two Twin²-Serverbarebones 2U Novarion Quanton Twin² 2200W High-Performance Server system with 4 nodes, each with two 20th-Core Intel Xeon Gold 6230 (2.1 GHz) processors (Cascade Lake-SP) and 192 GB DDR4 2933 GHz Reg. ECC RAM. The attached 240 GB SSD SATA-3 disk provides the local swap and /tmp file system.
The hardware was purchased from transtec AG and Novarion Systems GmbH.
Use of the ITP Opteron Cluster
How can I use the cluster?
To get a quick overview, see the Short Tutorial or have a look at the following specific topics:
- Login to the cluster
- Change your password
- Set up your environment
- Using the Son of Grid Engine (batch system):
- SGE tutorial
- Vendor documentation
- Queues of the ITP Opteron Cluster
Where can I store my data?
Three different types of storage are available on the cluster:
| directory | storage integration | description |
| /home | shared to all nodes |
|
| /scratch | shared to all nodes |
|
| /tmp | local on every node |
|
Please note, that the directories /home and /scratch are avaliable on every cluster node. These directories are shared, whereas the /tmp directory is local on every node.
If the above mentioned quota limitations are too strict for your needs, please contact the system administrator (system-admin[at]mcavity.uibk.ac.at). It is no problem to increase the limits if there are reasons to do so.
User Accounts
The user accounts on the cluster are managed via the Network Information Service (NIS). Ordinary users can run the command yppasswd to change their NIS password. It will prompt them for their old NIS password and then ask them for their new password twice, to ensure that the new password was typed correctly.
$ yppasswd
Changing NIS account information for "user ID" on regulus.uibk.ac.at.
Please enter old password: <type old value here>
Changing NIS password for "user ID" on regulus.uibk.ac.at.
Please enter new password: <type new value>
Please retype new password: <re-type new value>
Changing NIS password has been changed on regulus.uibk.ac.at.
If the old value does not match the current value stored for that user, or the two new values do not match each other, then the password will not be changed.
Back Up of Home Directories
The files in the "home" directories of the HPC Cluster are automatically backed up daily by centrally-scheduled ADSM/TSM tasks. Thus, if you have deleted files or directories in your home by mistake you can restore them yourself by running the command /usr/bin/dsm at the command line on the master node, where your home directory physically is located (see Restore deleted files/directories).
Note: Files in directories named tmp or cache will be NOT backed up!
For more information about ADSM/TSM, see Tivoli Storage Manager or ADSM/TSM-Server (FABS: HSM, Backup) and TSM V5: Sichern und Wiederherstellen von Daten at the ZID home page.
User Quota
In order to get a better grip on some of the more pesky users of the ITP Opteron Cluster we have activated quotas on the central file server regulus. To check your disk quota type quota at the command line. The quota(1) command displays the current disk usage along with your personal limits for disk space (blocks) and number of inodes (files). The soft limit (quota) can be temporarily exceeded (for a grace period of 7 days) whereas the hard limit (limit) is an absolute upper bound.
If you run out your quota you might first choose to tar and gzip directories. This is convenient as the kfm-window manager allows you to view and manipulate tgz files just like ordinary directories. Other simple strategies are:
- remove unused
dvi,aux,logfiles; - clear your firefox cache;
- avoid keeping many huge matlab data files if possible.
Note: If your (hard) quota is exceeded and/or you do not have any grace time for your soft quota, your submitted jobs will be aborted (due to write errors)!
Installed Software
- Operating System
The cluster is running CentOS 6.8, which is a compatible rebuild of Redhat-Enterprise Linux, on the master node and on the compute nodes. - Job-Management-System
Submit your jobs via Son of Grid Engine 8.1.8. - Software environment
Set up your software environment by using Modules environment 3.2.10. - Software packages
Have a look at the available packages like compilers, parallel environments, numerical libraries, scientific applications, etc.
Contact
If you need additional information about the ITP Opteron Cluster or an account on it or if you have problems with applications, please contact your system administrators:
| E-mail address: | system-admin[at]mcavity.uibk.ac.at |
| Phone number: | 52212 |