1 changed files with 2 additions and 1 deletions
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tasks/CNVkit.wdl
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| String? fasta | String? fasta | ||||
| File ref_flat | File ref_flat | ||||
| File bed_file | File bed_file | ||||
| String center_at | |||||
| File tumor_bam | File tumor_bam | ||||
| File tumor_bam_index | File tumor_bam_index | ||||
| File? normal_bam | File? normal_bam | ||||
| -p $nt | -p $nt | ||||
| ls ./ | ls ./ | ||||
| /root/miniconda2/bin/cnvkit.py call ${sample}.cns/${sample}.cns --center-at -0.51 \ | |||||
| /root/miniconda2/bin/cnvkit.py call ${sample}.cns/${sample}.cns --center-at ${center_at} \ | |||||
| -o ${sample}.call.cns | -o ${sample}.call.cns | ||||
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