Cluster 1

Our cluster at the University of Toronto St George Campus in the Faculty of Pharmacy is described on this page. We also have Cluster 0 and Cluster 2 at UCSF in San Francisco.

Status

Cluster 1 is being wound down. Please plan to move your files to Cluster 2 in May 2014.

Toronto - our cluster

Obtaining credentials

For command line access to our cluster, please contact Teague, Therese or John for credentials. For your main email address, you may well use your gmail account or other public account for most purposes.

Disk usage conventions

We differentiate dockers from everyone else. If you are a full time member of the group, your disk space allocation will be like this:

Your home directory is for important or small files. 500 GB default. Backed up.

/nfs/home/<userid>/

We expect you to run docking calculations in work. 1TB default. Not backed up.

/nfs/work/<userid>/

If you have large amounts of data you want kept, e.g. from the synchrotron, you may request repository space to keep it. Backed up. Size by agreement. Please compress your image files!

/nfs/store/<userid>/

If you generate private databases, you may request /db/ space. Backup by arrangement. Size by agreement.

/nfs/db/<userid>/

If you have software you want to share, you may request /software/ space. backed up. 500 GB.

/nfs/software/<userid>/

Getting set up with lab software

svn co dockenv
cp $SOFT/labenv.csh ~/.csh 

OR

cp $SOFT/labenv.sh ~/.bashrc

for bash users.

Roles and Functions of Computers

routine access to cluster

• sgehead. includes csd license. pgf license

pipeline pilot license

• ppilot

static web server

• runaway (vm on rocky)
• includes wiki, www
• NB was contact at some point, kinda liked that name for a webserver
• includes drupal
• includes wordpress

postgres server

• production: taxi
• intern: raiders

dynamic web server (ZINC, etc)

• oz

SEA server

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

NFS Disk servers

• fawlty
• towers

Name reuse pool

• vertigo
• sundance
• spotless
• lostark
• airplane
• brian
• terminator
• psycho
• strangelove

Cloud machines (hypervisor)

• Django
• Pulp
• Raiders
• Strangelove
• Rocky

Unknown/unassigned function

• blues
• goldmember
• darkness

389 Server

• spinaltap

Physical Machines

NB this section needs updating!

Rack 1

Currently in Donnelly 630. Totals: 426 cores for cluster. 128 cores for infrastructure. 60 TB RAID-10 formatted. (130 TB raw)

• 3x ( Dell PowerEdge C6145. = 2 x ( 256 GB / 64 cores / 6 TB raw disk )) 64 x 2 x 3 = 384 cores.
• HP disk head node, (25 TB raw disk systems ) x 4.
• Dell disk head node x 1, Dell SAS 2TB x 8??.
• DL165 x 4. 8x4 = 32 cores.
• Dell Switch: switch-1-1.
• UPS

Rack 2

Currently in Pharmacy 8xx. Planned June 2013

• Dell PowerEdge C6145
• Dell Switch: switch-2-1.
• 42 tape robot backup system
• dedicated computer for backup

Rack 3

Currently in Pharmacy 8xx. Planned June 2013

• Dell PowerEdge C6145
• Dell Switch: switch-3-1.
• legacy nodes

Rack 4

Currently in Pharmacy 8xx. Planned June 2013

• will be: Dell PowerEdge 6145
• Dell Switch: switch-4-1.
• legacy nodes

Rack 5

Currently in Pharmacy 8xx. Planned June 2013

• will be: Dell PowerEdge 6145
• Dell Switch: switch-5-1.
• legacy nodes

Wet Lab

Donnelly 940. Planned June 2013.

• 4 instrument workstations
• 3 linux desktops HP Z430
• 1 windows7 desktop HP Z400
• 1 color printer
• 3 Mac lab laptops
• 1 switch: switch-w-1

Dry Lab

Donnelly 650. Planned June 2013.

• 6 linux desktops. HP Z430
• 1 windows7 desktop HP Z400
• 6 Mac lab laptops
• 1 switch: switch-d-1

Other Offices and locations

• BKS office
• JJI office
• desk space in OICR

About our cluster