Cluster 2

Our new cluster at UCSF is described on this page. The physical equipment in cluster Cluster 0 will be subsumed into this cluster when it replicates all the functions of the original. We expect this to happen later in 2014.

Priorities and Policies

• Lab Security Policy
• Disk space policy
• Get a cluster 2 account

Equipment, names, roles

• The Hebrew alphabet is used for physical machines, Greek for VMs. Functions (e.g. sgehead) are aliases (CNAMEs).
• Cluster 2 is currently stored entirely in Rack 0 which is in Row 0, Position 4 of BH101 at 1700 4th St (Byers Hall). More racks will be added by July.
• Core services are on aleph, an HP DL160G5. Using a libvirt hypervisor, aleph runs all core services.
• There are 3 Silicon Mechanics Rackform nServ A4412.v4 s, each comprising 4 computers of 32 cpu-cores for a total of 384 cpu-cores.
• An HP DL165G7 (24-way) is sgehead
• HP disks - new in 2014 - 40 TB RAID6 SAS
• Silicon Mechanics NAS - new in 2014 - 76 TB RAID6 SAS
• an HP DL160G5 and an MSA60 with 12 TB SAS - new in 2014.
• A Dell C6145 with 128 cores.
• Current total of 512 cores for queued jobs and 128 cores for infrastructure, databases, management and ad hoc jobs.

Disk organization

• shin aka nas1 mounted as /nfs/db/ = 72 TB SAS RAID6
• bet aka happy, internal: /nfs/store and psql (temp) as 10 TB SATA RAID10
• elated on happy: /nfs/work only as 36 TB SAS RAID6
• het (43) aka former vmware2 MSA 60 exports /nfs/home and /nfs/soft

Getting started

= Roles = 

General

• sgehead - access to the cluster from within the lab
  • pgf fortran compiler
  • submit jobs to queue
• portal - access to the cluster from off campus
• ppilot - our pipeline pilot license will be transferred here
• www - static webserver VM
• dock - dock licensing VM
• drupal -
• wordpress -
• public - runs public services ZINC, DOCK Blaster, SEA, DUDE
• happy - postgres production server
• ark - intern psql, like raiders in yyz
• nfs1 - disk server 1
• nfs2 - disk server 2
• nfs3 - disk server 3
• fprint - fingerprinting server

Services

• aleph - VM running core administrative functions
• bet -
• gimel -
• dalet -
• he -
• vav -
• zayin -

SEA server

• fawlty
• mysql server is on msqlserver aka inception
• fingerprint server is on fingerprint aka darkcrystal

By rack

Rack 0 - 10.20.0.*

Location BH101, column 7 row 5

• aleph
• bet
• happy

Rack 1 - 10.20.10.*

Location: BH101, column 1 row 0

Rack 2 - 10.20.30.*

Location: BH

= how to administer DHCP / DNS in BH101

https://www.cgl.ucsf.edu/dns_dhcp/

About our cluster