SGI UV – Research Computing Skip to content Institutes News and Events Projects White Papers Publications Contact Research Computing Blog Menu Search for: SGI UV The majority of open source bioinformatics applications in use today have been written for the Linux OS on x86_64 hardware, and this is a standard platform for the majority of Linux servers and HPC clusters. A commodity server available from most major vendors will typically support a maximum of 256GB or 512GB of RAM on the motherboard, which is adequate for the majority of applications. However there are algorithms in modern bioinformatics which require a very much larger memory footprint and where a standard server (or node in a cluster) is not a practical solution. The SGI Altix UV range of system offers a large contiguous memory footprint within a single system image (SSI), which is of particular importance for memory intensive applications such as the ‘assembly’ of genome data output from high throughput genome sequencing instruments. TGAC has three SGI UV systems. Two UV100 systems with 768 cores and 6TB of memory, and one UV2000 system with 2560 cores, 20TB of memory and 32 Xeon Phi modules. The UV2000 has been divided into three hardware partitions, each of which runs a separate instance of Linux, and so they can be regarded as three separate systems. System Model UV100 UV100 UV2000 (UV2000) (UV2000) UV300 UV300 Partitions Partition 1 Partition 1 Partition 1 Partition 2 Partition 3 Partition 1 Partition 1 System Name uv1 uv2 uv2k1 uv2k2 uv2k3 Ripley Designation Decommissioned Production Production Production Development Production Production CPU cores 768 768 1024 1024 512 256 256 Total RAM 6TB 6TB 8TB 8TB 4TB 12TB 12TB CPU model Intel Xeon X7560, 2.27 GHz Intel Xeon E7-8837, 2.66 GHz Intel SandyBridge E5-4650L, 2.6 GHz Intel SandyBridge E5-4650L, 2.6 GHz Intel SandyBridge E5-4650L, 2.6 GHz Intel Haswell E7-8867V3, 2.5GHz Intel Haswell E7-8867V3, 2.5GHz CPU cache 24MB L3 24MB Smart Cache 20MB Smart Cache 20MB Smart Cache 20MB Smart Cache 45MB Smart Cache 45MB Smart Cache Offload processors none none none none 32 x Xeon Phi 5110P (Knights Corner 2250). 8GB RAM and 60 cores per Phi, 1.1GHz none none Blades 48 48 64 64 48 4 4 Sockets per blade 2 2 2 2 16 x 2 skt , 32 x 1 skt *See Note 1 4 4 Cores per socket 8 8 8 8 8 16 16 RAM per socket/blade 64GB / 128GB 64GB / 128GB 64GB / 128GB 64GB / 128GB 64GB / (32x64GB , 16x128GB) *See Note 1 768GB / 3TB 768GB / 3TB RAM per core 8GB 8GB 8GB 8GB 8GB 48GB 48GB Operating System RHEL 6.2 RHEL 6.4 RHEL 6.4 RHEL 6.4 RHEL 6.4 RHEL 7.1 RHEL 7.1 Load Scheduler PBS Pro version 11.3 PBS Pro version 11.2 PBS Pro version 11.3 PBS Pro version 11.3 PBS Pro version 12.0 SLURM v14.11 SLURM v14.11 Scratch Storage 20TB XFS 88TB CXFS 110TB CXFS shared across all UV2000 partitions 100TB S100 disk XFS 32TB NVMe FLASH (16x 2TB P3700) 100TB S100 disk XFS 32TB NVMe FLASH (16x 2TB P3700) Note 1: 48 blades in total, 32 blades with a Phi installed, 16 without RECENT POSTS Responding to Covid19 CIMMYT HPC visit to CiS SYSTEMS AND SERVICES … High Performance Computing SGI UV HPC Clusters Data Storage Projects Software Data Centres Services Information for Contractors Copyright © 2014-2022, NBI Partnership Ltd
