Biocluster Issue

posted Jun 1, 2016, 9:05 AM by Jordan Hayes   [ updated Jun 1, 2016, 9:05 AM ]

There was a problem with one of the power distribution units.
It caused an overload on the circuit which brought down several nodes and the pigeon head node.
Please resubmit your jobs if you were affected.

New Batch Nodes

posted May 24, 2016, 4:55 PM by Jordan Hayes

The batch queue has gained 1280 more CPU cores today.

GPFS Upgrade

posted Oct 23, 2015, 10:38 AM by Jordan Hayes   [ updated Nov 9, 2015, 2:32 PM ]

We have upgraded our distributed filesystem, GPFS. The new version of GPFS no longer supports CNFS, which was used by the following services:
    1. Biocluster .html directories (ie.
    2. Biocluster DBs (ie. mysql -h
    3. Biocluster dashboard (ie.
    4. Rstudio (
    5. Illumina data download page (

These services will be resurrected as soon as possible.
Thank you for your understanding.

All services have been restored.

Scheduled Biocluster Shutdown

posted Aug 19, 2015, 11:45 AM by Jordan Hayes   [ updated Aug 19, 2015, 11:47 AM ]

The Biocluster requires a scheduled shutdown of ALL services: Torque/Maui (PBS queuing system), Websites, virtual environments/machines, storage access, backup systems and network services. We ask that you please make sure that you do not have any jobs running in the queue, and that you completly logout of Biocluster ( before the shutdown.

The scheduled time for this shutdown is as follows (48 hours):
    Start - Friday, September 11th, 2015 @ 12:00am
    End - Saturday, September 12th, 2015 @ 11:59pm

If you have any questions or concerns, please contact us at

Emergency Shutdown

posted Aug 30, 2014, 12:30 AM by Jordan Hayes   [ updated Sep 3, 2014, 2:19 PM ]

The AC units in our server room have both failed. We have executed an emergency shutdown of all our systems.

Physical Plant is scheduled to repair the units tomorrow (Saturday August 30th), at which point we will then restore our systems.

Scheduled Shutdown

posted May 23, 2014, 10:56 AM by Jordan Hayes

Shutdown of ALL services has started. This includes, but is not limited to; Torque/Maui (PBS queuing system), Websites, virtual environments/machines, storage access, backup systems and network services.

The scheduled time for this shutdown will be:
        12:00am, Fri, May 23, 2014
        11:59pm, Sat, May 24, 2014

An additional post here, and email will be sent, when Biocluster is fully operational.
Thank you for your patience and understanding.

Biocluster Down

posted May 7, 2014, 5:03 PM by Jordan Hayes   [ updated May 8, 2014, 3:28 PM by Grant Brady ]

We are currently aware of the situation and are working rigorously to resolve this issue.

Biocluster Slowness

posted Apr 9, 2014, 3:47 PM by Jordan Hayes

At approximately 2:30pm today there were some storage connectivity issues.
These issues were resolved, and Biocluster is now operating normally.

Biocluster Loing Issue

posted Apr 8, 2014, 12:03 PM by Jordan Hayes   [ updated Apr 8, 2014, 12:40 PM ]

We are currently experiencing intermittent login/connection issues with Biocluster.
We are working hard to resolve this issues.

Biocluster systems have been restored.
We will continue to closely monitor the situation.

Default Memory Reservation Added to Cluster

posted Apr 7, 2014, 5:42 PM by Grant Brady

We have set the default memory reservation to 1GB for the batch queue (nodes 1-34). If you do not specify otherwise, the cluster will now assume that your job only needs 1GB of RAM. You will need to make a specific reservation if your job needs more memory than 1GB or the cluster will automatically kill the job for resource violations. For information on making a reservation, please consult the cluster manual:

These changes have increase the stability of the cluster by preventing nodes from being over-allocated. This greatly reduces the chances of a node crashing. It will also help prevent cases where jobs run too slowly or not at all because they do not have the resources they need. If you can any questions about this, please contact us at

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