linzipeng
6 years ago
1 changed files with 3 additions and 3 deletions
+ 3
- 3
tasks/Dedup.wdl
View File
| command <<< | command <<< | ||||
| set -o pipefail | set -o pipefail | ||||
| set -e | set -e | ||||
| mv ${unsorted_bam} ./ | |||||
| input = basename ${unsorted_bam} | |||||
| /src/Bismark-0.18.2/deduplicate_bismark -p --bam ./$input | |||||
| /src/Bismark-0.18.2/deduplicate_bismark -p --bam ${unsorted_bam} | |||||
| outputdir= dirname ${unsorted_bam} | |||||
| cp ${outputdir} ./ | |||||
| >>> | >>> | ||||
| runtime { | runtime { | ||||
| docker:docker | docker:docker |
Loading…