LUYAO REN
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tasks/final_merge.wdl
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| @@ -10,7 +10,7 @@ task final_merge { | |||
| command <<< | |||
| /opt/ccdg/bedtools-2.27.1/bin/bedtools merge -i ${HR_merged_intersect_bed} ${variants_merged_bed} > variant_invariant.bed | |||
| cat ${HR_merged_intersect_bed} ${variants_merged_bed} | sort -k1,1 -k2,2n | /opt/ccdg/bedtools-2.27.1/bin/bedtools merge -i - > variant_invariant.bed | |||
| /opt/ccdg/bedtools-2.27.1/bin/bedtools intersect -a variant_invariant.bed -b ${callable_merged_intersect_bed} > benchmark_regions.bed | |||
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