Hi Folks, I received an email from one of my end users that she was having an issue with the "Realigner Target Creator" under NGS: GATK Tools. Here's the error: An error occurred running this job: "Unable to access jar file /hpcdata/galaxy-setup/galaxy-dist/tool-data/shared/jars/gatk/GenomeAnalysisTK.jar." That was easy to resolve since the jar file is located at either /hpcdata/galaxy-setup/galaxy-dist/tool-data/shared/jars/GATK/1.4.2/ or /hpcdata/galaxy-setup/galaxy-dist/tool-data/shared/jars/GATK/1.6.13/. I modified the xml to point to the /1.4.2 directory and now I get "Could not create the Java virtual machine." I have looked at the wrapper for java settings and restarted the Galaxy server, but am at a loss. Do you have any ideas? Thanks, Iry Witham Scientific Applications Administrator Scientific Computing Group Computational Sciences Dept. The Jackson Laboratory 600 Main Street Bar Harbor, ME 04609 Phone: 207-288-6744 email: iry.witham(a)jax.org The information in this email, including attachments, may be confidential and is intended solely for the addressee(s). If you believe you received this email by mistake, please notify the sender by return email as soon as possible.