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tasks/samtools.wdl
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| nt=$(nproc) | nt=$(nproc) | ||||
| mkdir -p /cromwell_root/tmp/samtools | mkdir -p /cromwell_root/tmp/samtools | ||||
| cd /cromwell_root/tmp/samtools | cd /cromwell_root/tmp/samtools | ||||
| /opt/conda/bin/samtools -@ $nt index ${sep=' ' tumor_bam} | |||||
| /opt/conda/bin/samtools -@ $nt index ${sep=' ' normal_bam} | |||||
| /opt/conda/bin/samtools index ${sep=' ' tumor_bam} | |||||
| /opt/conda/bin/samtools index ${sep=' ' normal_bam} | |||||
| >>> | >>> | ||||
| runtime { | runtime { |
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