Cluster 1

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This cluster is defunct. Please use Cluster 2.


Cluster 1 is being wound down. Please plan to move your files to Cluster 2 asap.

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.


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


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!


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


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


Getting set up with lab software

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


cp $SOFT/ ~/.bashrc

for bash users.

Roles and Functions of Computers

routine access to cluster

  • sgehead. includes csd 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

Cloud machines (hypervisor)

  • Django
  • Pulp
  • Raiders
  • Strangelove
  • Rocky

389 Server

  • spinaltap

Physical Machines

Rack 1

Currently in Pharmacy 848. Totals: 448 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 3. 8x3 = 24 cores.
  • Dell Switch: switch-1-1.
  • UPS

Rack 2

Currently in Pharmacy 848.

  • Dell PowerEdge C6145
  • Dell Switch: switch-2-1.

Wet Lab

Donnelly 940.

  • 4 instrument workstations
  • 1 linux desktop HP Z420
  • 1 windows7 desktop HP Z400
  • 1 color printer
  • 3 Mac lab laptops
  • 1 switch: switch-w-1

Dry Lab

Donnelly 650.

  • 8 linux desktops. HP Z420

About our cluster