Droop, AP (2016) qsubsec: A lightweight template system for defining Sun Grid Engine workflows. Bioinformatics, 32 (8). pp. 1267-1268. ISSN 1367-4803
Abstract
The Sun Grid Engine (SGE) high-performance computing batch queueing system is commonly used in bioinformatics analysis. Creating re-usable scripts for the SGE is a common challenge. The qsubsec template language and interpreter described here allow researchers to easily create generic template definitions that encapsulate a particular computational job, effectively separating the process logic from the specific run details. At submission time, the generic template is filled in with specific values. This system provides an intermediate level between simple scripting and complete workflow management tools.
Metadata
Item Type: | Article |
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Authors/Creators: |
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Copyright, Publisher and Additional Information: | © The Author 2015. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
Dates: |
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Institution: | The University of Leeds |
Academic Units: | The University of Leeds > Faculty of Medicine and Health (Leeds) |
Depositing User: | Symplectic Publications |
Date Deposited: | 15 Dec 2015 09:44 |
Last Modified: | 12 Feb 2019 13:17 |
Published Version: | http://dx.doi.org/10.1093/bioinformatics/btv698 |
Status: | Published |
Publisher: | Oxford University Press |
Identification Number: | 10.1093/bioinformatics/btv698 |
Related URLs: | |
Open Archives Initiative ID (OAI ID): | oai:eprints.whiterose.ac.uk:92769 |