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tasks/bedtools.wdl
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| @@ -10,7 +10,7 @@ task bedtools { | |||
| command <<< | |||
| set -e -o pipefail | |||
| path=$(dirname ${bam}) | |||
| path=$(dirname ${sep=' ' bam}) | |||
| mv ${sep=' ' bai} $path | |||
| bedtools multicov -bams ${sep=' ' bam} -bed ${bed_file} > revread_count.txt | |||
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