1 changed files with 0 additions and 8 deletions
+ 0
- 8
tasks/battenberg.wdl
View File
| samtools view -h -@ 16 -o ${normal_id}.sorted.deduped.sam ./${normal_id}.bam | samtools view -h -@ 16 -o ${normal_id}.sorted.deduped.sam ./${normal_id}.bam | ||||
| samtools view -h -@ 16 -o ${sample_id}.sorted.deduped.sam ./${sample_id}.bam | samtools view -h -@ 16 -o ${sample_id}.sorted.deduped.sam ./${sample_id}.bam | ||||
| #sed -i 's/chr//g' ${normal_id}.sorted.deduped.sam | |||||
| #sed -i 's/chr//g' ${sample_id}.sorted.deduped.sam | |||||
| samtools sort -@ 16 -o ${normal_id}.sorted.deduped.nochr.bam ${normal_id}.sorted.deduped.sam | |||||
| samtools sort -@ 16 -o ${sample_id}.sorted.deduped.nochr.bam ${sample_id}.sorted.deduped.sam | |||||
| >>> | >>> | ||||
| runtime { | runtime { |
Loading…