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tasks/replaceRG.wdl
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| command <<< | command <<< | ||||
| SAMTOOLS_DIR="/opt/samtools/samtools-1.13" | SAMTOOLS_DIR="/opt/samtools/samtools-1.13" | ||||
| $SAMTOOLS_DIR/samtools addreplacerg -r "@RG\tID:${group}\tSM:${sample}\tPL:${pl}" -o ${bam_name}.bam ${bam} | |||||
| $SAMTOOLS_DIR/samtools addreplacerg -w -r "@RG\tID:${group}\tSM:${sample}\tPL:${pl}" -o ${bam_name}.bam ${bam} | |||||
| $SAMTOOLS_DIR/samtools index ${bam_name}.bam | $SAMTOOLS_DIR/samtools index ${bam_name}.bam | ||||
| >>> | >>> | ||||
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