To celebrate the release of GATK 4.0, we are giving away free credits for running the GATK4 Best Practices pipelines in FireCloud, our secure online analysis portal. It’s first come first serve, so sign up now to claim your free credits worth $250. Sponsored by Google Cloud. Learn more at https://software.broadinstitute.org/firecloud/documentation/freecredits

Can muTect use a different tmp location

Hi folks,

Is there a command line parameter for muTect that can tell it to use a specified directory, rather than /tmp, for its temporary files? Our reason for this question is to address security concerns. Obviously, we can run muTect with a umask of 0007 to keep others from reading the output in a shared environment, such as on a compute node of a cluster, but then needing to chmod all output and logs, to open them up is an added step which our users may miss. Thanks in advance for any help you can provide.

regards,
Scott

Answers

Sign In or Register to comment.