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Best Practices: bwa mem command

manolismanolis Member ✭✭✭
edited May 2019 in Ask the GATK team

Hi,

here is the bwa code:

${bwa_path}${bwa_commandline} /dev/stdin - 2> >(tee ${output_bam_basename}.bwa.stderr.log >&2)

I can not understand this part: " - 2> " , after "/dev/stdin"...

In the "bwa mem" manual I can not find it. Is it a WDL option?

Many thanks

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