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Available Services

Interactive and cluster submission computers

Jalapeno.fmrib.ox.ac.uk/jalapeno.cluster.fmrib.ox.ac.uk (internal networks)

This is our general purpose Linux computer, available to connect to via SSH from a University network. External to the University, use a VPN connection.

Appropriate uses:

  • Submitting jobs to the grid engine computing cluster
  • Looking at analysis results, e.g. FEAT reports, FSLView 
  • Graphical desktop sessions using VNC
    • The number of connections is limited - please don't leave them running if you don't need them for more than a day or two.

Jalapeno must not be used to do computationally intensive tasks - use the cluster or another machine. For example we do not allow (and actively prevent) the use of MATLAB on this machine. 

As this machine is our public facing computer it needs to be kept up-to-date with security updates, so this machine will be rebooted on a regular basis (as required by the updates necessary). The maintenance window is the second Tuesday of the month, 9-10am, unless a pressing security need requires more urgent action. The machine should be considered at risk during this period, but we aim to advise in advance of any required reboot.

Jalapeno00.cluster.fmrib.ox.ac.uk

This is our medium-memory (128GB) general purpose computer. Access to this machine from outside of the FMRIB network is via VPN or via a jalapeno SSH Appropriate uses: 

  • Interactive MATLAB sessions: 

    • Where possible MATLAB processing should be done on the cluster using the interactive queues or, preferably, the work should be scripted such that you can submit to the normal queues. However, where you have an interactive task that is likely to take a long time you may use this machine. 

    • This is a shared computer, so anything requiring a large amount of memory (>8GB) should be run elsewhere (interactive queues, or scripted/compiled and using the normal queues) We would also recommend that any long running process should take steps to save intermediate results - we cannot guarantee 100% up time from any computer. 

  • Queue Submission: 

    • Normally you would use Jalapeno, but submission is also possible from this machine (for example, perhaps from a workflow that involves MATLAB). 

  • VNC sessions: 

    • If you have a long running process that can't run on the cluster use this machine as it will be need to be restarted much less regularly than jalapeno. 

As this machine is not public facing, updates will be installed on a less aggressive schedule. Consequently, the machine will need to be rebooted much less frequently than Jalapeno.

Jalapeno18.cluster.fmrib.ox.ac.uk

This is our high-memory (1.25TB) general purpose computer. Access to this machine from outside of the FMRIB network is via VPN or via a jalapeno SSH Appropriate uses: 

  • Interactive MATLAB sessions: 

    • Where possible MATLAB processing should be done on the cluster using the interactive queues or, preferably, the work should be scripted such that you can submit to the normal queues. However, where you have an interactive task that is likely to take a long time you may use this machine. 

    • This is a shared computer, provided for large memory tasks. Please use jalapeno00 for more general interactive compute tasks. We would also recommend that any long running process should take steps to save intermediate results - we cannot guarantee 100% up time from any computer. 

  • Queue Submission: 

    • Normally you would use Jalapeno, but submission is also possible from this machine (for example, perhaps from a workflow that involves MATLAB). 

  • VNC sessions: 

    • If you have a long running process that can't run on the cluster use this machine as it will be need to be restarted much less regularly than jalapeno. 

As this machine is not public facing, updates will be installed on a less aggressive schedule. Consequently, the machine will need to be rebooted much less frequently than Jalapeno.

Cuda03.cluster.fmrib.ox.ac.uk

If your interactive task requires access to NVIDIA CUDA capable hardware then the computer cuda03.cluster.fmrib.ox.ac.uk provides access to two K80 class GPUs. These are provided on a first-come first-served basis.

Interactive MATLAB

Wherever possible MATLAB should be run on the cluster, where the task can only be run in an interactive fashion we provide interactive queues. Details are available in the queue submission documentation.