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Oakley, Owens

Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome. While each individual tool is designed to do a relatively simple task, quite sophisticated analyses can be conducted by combining multiple bedtools operations on the UNIX command line.

Oakley

NWChem aims to provide its users with computational chemistry tools that are scalable both in their ability to treat large scientific computational chemistry problems efficiently, and in their use of available parallel computing resources from high-performance parallel supercomputers to conventional workstation clusters.

Availability and Restrictions

The following versions of NWChem are available on OSC clusters:

Owens

To cite Owens, please use the following Archival Resource Key:

ark:/19495/hpc6h5b1

Here is the citation in BibTeX format:

@article{Owens2016,
ark = {ark:/19495/hpc93fc8},
url = {http://osc.edu/ark:/19495/hpc6h5b1},
year  = {2016},
author = {Ohio Supercomputer Center},
title = {Owens supercomputer}
}

And in EndNote format:

Oakley

ABINIT is a package whose main program allows one to find the total energy, charge density and electronic structure of systems made of electrons and nuclei (molecules and periodic solids) within Density Functional Theory (DFT), using pseudopotentials and a planewave or wavelet basis.

Oakley, Owens

"Condo model" refers to an arrangment when a client leases one or more compute nodes for the shared cluster while OSC provides all infrastructure, as well as maintenance and services. BMI's Condo on the Oakley Cluster is leased by the Biomedical Informatics Institute at The Ohio State University. This condo is a temporary "bridge" condo to server the community needs until the Owens Cluster is available.

Hardware

Detailed system specifications for the Oakley condo:

Glenn, Oakley, Owens, Ruby

Introduction

Owens, Oakley, Ruby

An eligible principal investigator (PI) heads a project account and can authorize/remove user accounts under the project account (please check our Allocations and Accounts documentation for more details). This document shows you how to identify users on a project account and check the status of each user. 

Glenn

Glenn Cluster Retired: March 24, 2016

The Glenn Cluster supercomputer has been retired from service to make way for a much more powerful new system. As an OSC client, the removal of the cluster will result in work being added to the heavy workload being handled by Oakley or Ruby, potentially impacting you.

Owens, Oakley, Ruby

We have been adding some output from qsub that should aid you in creating better job scripts. We've documented the various messages here.

NOTE

A "NOTE" message is informational; your job has been submitted, but qsub made some assumptions about your job that you may not have intended.

Oakley, Ruby

Elmer is an open source multiphysical simulation software developed by CSC - IT (Finland).

From their Github README:

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