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Owens, Pitzer

Connectome Workbench is an open source, freely available visualization and discovery tool used to map neuroimaging data, especially data generated by the Human Connectome Project.

Availability and Restrictions

Versions

Connectome Workbench is available on Owens and Pitzer clusters. These are the versions currently available:

Statewide Users Group Conference Agenda - April 9, 2020

Owens, Pitzer, Ruby

On July 12th, 2016 OSC migrated its old GPFS and Lustre filesystems to new Project and Scratch services, respectively. We've moved 1.22 PB of data, and the new capacities are 3.4 PB for Project, and 1.1 PB for Scratch. If you store data on these services, there are a few important details to note.

Owens

LS-PrePost is an ad­vanced pre and post-proces­sor that is de­liv­ered free with LS-DY­NA.

Availability and Restrictions

Versions

The following versions of ls-prepost are available on OSC clusters:

Globus Connect Server v5 allows OSC users to share data with their collaborators who do not have OSC HPC account (the collaborator needs to sign up for a free Globus account though). The advantage of data sharing via Globus is that you do not have to move your data in order to share it. You can select directory paths to be securely shared with your collaborator, and grant them read-only or read-write access.

Globus Connect Logo

Globus is a cloud-based service designed to let users move, share, and discover research data via a single interface, regardless of its location or number of files or size.

Owens, Pitzer

QGIS is a user friendly Open Source Geographic Information System (GIS) licensed under the GNU General Public License. QGIS is an official project of the Open Source Geospatial Foundation (OSGeo). It runs on Linux, Unix, Mac OSX, Windows and Android and supports numerous vector, raster, and database formats and functionalities.

Availability and Restrictions

Versions

The following versions of QGIS are available on OSC clusters:

Owens, Pitzer, Ruby

Gaussian is the most popular general purpose electronic structure program. Recent versions can perform density functional theory, Hartree-Fock, Möller-Plesset, coupled-cluster, and configuration interaction calculations among others. Geometry optimizations, vibrational frequencies, magnetic properties, and solution modeling are available. It performs well as black-box software on closed-shell ground state systems. 

Owens, Pitzer, Ruby

The XDMoD tool at xdmod.osc.edu can be used to get an overview of how accurate the requested wall-time of jobs are with the actual wall-time of jobs.

The requested wall-time is the amount of time that one wants to reserve resources.

#PBS -l walltime=xx:xx:xx

The actual walltime is how long the job held the reserved resources before completing. It will be related to one in the job output file with filename

Owens, Pitzer

Bismark is a program to map bisulfite treated sequencing reads to a genome of interest and perform methylation calls in a single step.

Availability and Restrictions

Versions

The following versions of bedtools are available on OSC clusters:

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