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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.

Glenn, Oakley, Owens

While we provide a number of Perl modules, you may need a module we do not provide. If it is a commonly used module, or one that is particularly difficult to compile, you can contact OSC Help for assistance, but we have provided an example below showing how to build and install your own Perl modules. Note, these instructions use "bash" shell syntax; this is our default shell, but if you are using something else (csh, tcsh, etc), some of the syntax may be different.

Oakley, Owens

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

For more information about citations of OSC, visit https://www.osc.edu/citation.

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

ark:/19495/hpc6h5b1

Please adjust this citation to fit the citation style guidelines required.

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 Owens Cluster is leased by the Biomedical Informatics Institute at The Ohio State University. 

Hardware

On Owens, the condo specifications are:

Oakley, Owens, Ruby

Introduction

Oakley, Owens, 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.

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