1 changed files with 3 additions and 2 deletions
+ 3
- 2
tasks/bedtools.wdl
View File
| command <<< | command <<< | ||||
| set -e -o pipefail | set -e -o pipefail | ||||
| path=$(dirname ${sep=' ' bam}) | |||||
| mv ${sep=' ' bai} $path | |||||
| mkdir -p /cromwell_root/tmp/bedtools | |||||
| mv ${sep=' ' bai} /cromwell_root/tmp/bedtools | |||||
| cd /cromwell_root/tmp/bedtools | |||||
| bedtools multicov -bams ${sep=' ' bam} -bed ${bed_file} > revread_count.txt | bedtools multicov -bams ${sep=' ' bam} -bed ${bed_file} > revread_count.txt | ||||
| >>> | >>> |
Loading…