Computer overview

Construction of KOG server system

The KOG genome analysis system complies with the following security guidelines and can be used as a server outside NBDC institution, a third-case computer.

NBDC Human Data Handling Security Guidelines and NBDC Human Data Group Shared Data Handling Security Guidelines Checklist

It consists of three main components: computer, high-speed storage, and archive storage. Specifications are as follows:

1. Computation node: Approximately 2000 cores in total
  nodes OS CPU CPU cores
(per node)
Memory
(per node)
Computation node 25 CentOS 8 AMD EPYC 7742(2.25GHz) x1 64 512GB
Computation node
(Large memory)
2 CentOS 8 AMD EPYC 7742(2.25GHz) x2 128 4096GB

2. Shared storage (home directory)
  Total
Lustre 2.3PB

3. Tape archive
  Tape Drive Capacity
Quantum Scalar i6 LTO8 Tape Library 2 6PB

4. Network
  Name
Computational network 100Gbps EDR InfiniBand
Management network 10Gbps Ethernet

5. Job Scheduler (Univa Grid Engine)
Queue name Number of slots
(Queue)
Number of slots
(per node)
Memory
(Queue)
Memory
(per node)
Maximum execution time
lmem.q(Large memory job) 256 slot 128 slot 8 TB 4 TB 31 days
node.q(Normal job) 1200 slot 64 slot 10.2 TB 512 GB 31 days
qlogin.q(Dialogue job) 128 slot 64 slot 1 TB 512 GB Unlimited
(Automatic logout in 6hours without operation)