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GATK temporary directory

trickytanktrickytank The Walter and Eliza Hall Institute of Medical Research. Melbourne, AustraliaPosts: 3Member
edited October 2012 in Ask the GATK team

Hello,

During running of the depthOfCoverage tool, I get the error: /tmp/RsQHCt1W: No space left on device

I have tried changing the TMPDIR environment variable (and exporting) but eventually I get the same error. Is there a way to change the temporary directory that GATK uses?

I'm running GATK v2.1-8-g5efb575 on a Linux system.

Thanks, Rick

Post edited by Geraldine_VdAuwera on

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