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How to Run Picard Tools

The picard tools are installed in /u/local/apps/picard-tools/current/

To use them interactively, enter qrsh to start a session on a compute node. At the compute node shell prompt, enter:

java jvm-args -jar PicardCommand.jar option=value ...

where jvm-args are java arguments, PicardCommand.jar is one of the 40 available jar files, and option=value… are PicardCommand option value pairs.

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