Hello,

When we run "Realigner Target Creator for use in local realignment" , I have this error :

Dataset 19: Realigner Target Creator on data 5, data 6, and data 4 (GATK intervals)

Tool execution generated the following error message:

Could not create the Java virtual machine.

The tool produced the following additional output:

Epilog : job finished at jeu. janv. 10 14:49:10 CET 2013

So I have addded java -Xmx4G " in realigner_target_creator.xml file but the problem is not solved.

Do you have any idea ??

Thanks in advance,
Sarah