LUYAO REN
4 years ago
1 changed files with 1 additions and 1 deletions
+ 1
- 1
tasks/getBam.wdl
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| @@ -8,7 +8,7 @@ task getBam { | |||
| String disk_size | |||
| command <<< | |||
| /opt/conda/bin/samtools view ${bam} -H ${sep=" " pos} | /opt/conda/bin/samtools view -bS - | /opt/conda/bin/samtools sort > ${sample}.bam | |||
| /opt/conda/bin/samtools view -b ${bam} ${sep=" " pos} | opt/conda/bin/samtools sort - > ${sample}.bam | |||
| /opt/conda/bin/samtools index ${sample}.bam | |||
| >>> | |||
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