Computing facility

The main computing facility of VDRC is a supercomputer consisting of a cluster of 118 nodes as follows:

System Specification

Hardware

Description

Quantity

Computing node

CPU: AMD Opteron Dual Core 2.2Ghz * 2

HDD: 73GB SAS Disk * 1

RAM: 1GB * 2

118

Admin node

CPU: AMD Opteron 2.6Ghz * 2

HDD: 73GB SAS Disk * 4

RAM: 2GB * 2

1

Login node

CPU: AMD Opteron 2.6Ghz * 2

HDD: 73GB SAS Disk * 4

RAM: 2GB * 2

1

File server

CPU: AMD Opteron 2.6Ghz * 2

HDD: 73GB SAS Disk * 1

RAM: 2GB * 2

1

Storage

NAS

Capacity: 4.2TB * 2(Mirroring)

HDD Type: SCSI

1

Network switch

Gigabit Ethernet

1

We use this computer almost everyday for processing and analyzing the proteins in PDB. When we develop an algorithm, we frequently run the code against all proteins in PDB to test its stability, efficiency, and robustness. We also frequently run all proteins in PDB into our codes to verify our hypothesis about the molecular structure. Without this computing power, we cannot even imagine to do so.

In addition, we have UPS (Uninterrupted Power Supply) and Thermo-hygrostat.