qsubsec: a lightweight template system for defining sun grid engine workflows | Zendy

Alastair Droop | Zendy

AI Assistant Blog Pricing

Home ZAIA Blog

Open Access

qsubsec: a lightweight template system for defining sun grid engine workflows

Author(s) -

Alastair Droop

Publication year - 2015

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btv698

Subject(s) - workflow , computer science , grid , software , computational science , software engineering , distributed computing , embedded system , database , operating system , geometry , mathematics

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.

The content you want is available to Zendy users.

Already have an account? Click here to sign in.

Having issues? You can contact us here

Accelerating Research