Hi all, We are trying to write our own GATK workflow (although I guess an "official" one will be released...) and I realized I have to parallelize execution as some steps are painfully slow. In order to run GATK quickly I need to split the whole process on specific genomic intervals (-L option) and merge results at the end (http://www.broadinstitute.org/gsa/wiki/index.php/Parallelism_and_the_GATK), hence I have to inform galaxy that it has to create parallel jobs, one for each interval, in a MapReduce way. I see from here http://gmod.org/mediawiki/images/5/50/April2012GalaxyUpdate.pdf that this feature will be somehow implemented, I also see from bitbucket commits that a BAM slicer has been added... Is there a release plan for this? Should I write my own wrapper/adapter? Thanks
d /* Davide Cittaro, PhD
Coordinator of Bioinformatics Core Center for Translational Genomics and Bioinformatics San Raffaele Scientific Institute Via Olgettina 58 20132 Milano Italy
Office: +39 02 26439140 Mail: cittaro.davide@hsr.it Skype: daweonline */
-------------------------------------------------------------------------- LA TUA CURA E' SCRITTA NEL TUO DNA. AL SAN RAFFAELE LA STIAMO REALIZZANDO. AIUTA LA RICERCA, DAI IL TUO 5XMILLE - CF: 03 06 80 153 info:www.5xmille@hsr.it - www.5xmille.org
Disclaimer added by CodeTwo Exchange Rules 2007 http://www.codetwo.com