Scientific Computing Announcements

New Harmony Gpu Nodes

The gizmo cluster has been augmented with more capable GPU nodes which we are calling the “harmony” class node. These systems have four NVIDIA L40S GPUs and...

Hpc Temp Empty Directories

There is an issue with the Temp file system- empty directories are being removed nightly. This is a consequence of the way the Temp service was designed and...

August Gizmo Maintenance

On August 5th from 7:00PM to 9:00PM we are going to be working on the Gizmo cluster. We will be upgrading to new packages and a new version of Slurm and swi...

Java Temporary Directory

On Gizmo we configure a job local directory to be used by jobs- this path points to local storage and creates a managed directory for use by that job. Once ...

Vscode Lmod And Python

A common way to use VScode is to have VScode running on your local system and using the remote feature to connect and run code on rhino/gizmo nodes with a Py...

October Maintenance

On Sunday, 29 October from 12:00PM PDT until 5:00PM PDT Scientific Computing will be upgrading and replacing a number of the systems and components in our co...

Fasterq Dump Issue

fasterq-dump is a command-line utility used to extract FASTQ or FASTA data from SRA-accessions.

Gpu Limits

We have implemented limits on the total number of GPUs an account can use concurrently. At this time (April 2023) we’ve set this limit to 20 GPUs (though th...

Rhino/Gizmo Updates, 10 September 2022

On 10 September 2022 the Systems Engineering team will be updating the operating system on the file server silver which hosts fast, home directories, and man...

Gizmo Scratch Maintenance

The gizmo cluster will be unavailable during the Scratch file system rebuild. To prevent jobs from running during this time we have placed a maintenance re...

AWS Cloud Migration

We’re getting ready to migrate to our new AWS environment! This new environment will provide many benefits over the current account structure and enable Sci...

Gizmo Bionic Upgrade

The current operating system used on the Gizmo cluster and Rhino login nodes is Ubuntu 14.04. This version has been out of support for some time now and is ...

STAR-2.7.3a

STAR aligns RNA-seq reads to a reference genome using uncompressed suffix arrays.

Python 3.6.5 Software Release

I’m happy to announce the latest Python release for the Gizmo cluster. This is our biggest and best Python release to date. To access use the modules comman...