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tasks/CNVkit.wdl
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| /root/miniconda2/bin/cnvkit.py call ${sample}.cns/${sample}.cns --center-at $center \ | /root/miniconda2/bin/cnvkit.py call ${sample}.cns/${sample}.cns --center-at $center \ | ||||
| -o ${sample}.call.cns | -o ${sample}.call.cns | ||||
| cp ${sample}.call.cns ${sample}.call.cns.bed | |||||
| ls ./ | ls ./ | ||||
| output{ | output{ | ||||
| File out_file = "${sample}.tar" | File out_file = "${sample}.tar" | ||||
| File cnv_bed = "${sample}.call.cns" | |||||
| File cnv_bed = "${sample}.call.cns.bed" | |||||
| } | } | ||||
| } | } |
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