On Jan 12, 2012, at 11:37 AM, Ryan Golhar wrote:

I'm trying to run Picard MarkDups through Galaxy. Picard is using the standard 4g for the java max heap size. I need to increase this. Is it possible to offer this as an option to the user? If not, where do I change this? I see the entry in picard_wrapper.py. Do I change it here or in the XML file for MarkDups?

Hi Ryan, You can set it in the XML by passing -x or --maxjheap= to picard_wrapper.py. You could also make this value come from a select list so the user can choose the desired heap size. --nate

Ryan ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:

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