[Biojava-l] Job launching system

[Schreiber, Mark]

Sounds interesting,

Is there overlap here with J2EE? Not entirely sure what you mean by
batch queues but I assume it would be along the lines of submitting jobs
to a blast farm or similar.

- Mark

> -----Original Message-----
> From: Keith James [mailto:kdj@sanger.ac.uk] 
> Sent: Saturday, 25 May 2002 5:38 a.m.
> To: BioJava List
> Subject: [Biojava-l] Job launching system
> 
> 
> 
> Just recently I've been working on a system for loading our 
> batch queues in a trackable manner and I'm wondering whether 
> there is any interest in adding it as a biojava cvs module. 
> In some ways it's a bit like a simplified Ensembl pipeline 
> minus all the application-specific bits (e.g. program output 
> parsing) but with support for jobs being "owned" by more than 
> one project. The idea was to decouple running programs from 
> parsing output and storing the data.
> 
> All the resource management is of course delegated to a batch 
> system like LSF or PBS, although without a batch system it 
> can just run stuff on the local host. The DB persistence is a 
> bit naive at the moment (it might need some caching).
> 
> Features:
>  Job ownership
>  Job dependencies (both && / || children) and retries on 
> failure  Java native interface to LSF for submission/queue 
> monitoring  Jobs implement standard Java MutableTreeNode 
> interface (-> JTree GUIs)  Command line generation with 
> Velocity Template Engine  Plugin job selection policies  
> PostgreSQL and Oracle support  Logging with log4j  Email notifications
> 
> Anyway, let me know.
> 
> Keith
> 
> -- 
> 
> -= Keith James - kdj@sanger.ac.uk - 
> http://www.sanger.ac.uk/Users/kdj =- Pathogen Sequencing 
> Unit, Wellcome Trust Sanger Institute, Cambridge, UK 
> _______________________________________________
> Biojava-l mailing list  -  Biojava-l@biojava.org 
> http://biojava.org/mailman/listinfo/biojava-l
> 
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