diff --git a/src/nf_modules/ucsc/main.nf b/src/nf_modules/ucsc/main.nf index 899157f960d515ce58755264c86cbc6cc6bbef7b..fefde3354f5687c30e98e49ebbdbad3ad811da1f 100644 --- a/src/nf_modules/ucsc/main.nf +++ b/src/nf_modules/ucsc/main.nf @@ -74,11 +74,13 @@ process bigwig2_to_wig2 { script: """ -bigWigToWig ${params.bigwig_to_wig} \ +bigWigToBedGraph ${params.bigwig_to_wig} \ ${bw_a} \ - ${bw_a.simpleName}.wig -bigWigToWig ${params.bigwig_to_wig} \ + ${bw_a.simpleName}.bg +awk '{if(NR>1) {if(\$1!=lastChrom){printf("variableStep chrom=%s\\n",\$1);lastChrom=\$1;}print \$2,\$4}}' ${bw_a.simpleName}.bg > ${bw_a.simpleName}.wig +bigWigToBedGraph ${params.bigwig_to_wig} \ ${bw_b} \ - ${bw_b.simpleName}.wig + ${bw_b.simpleName}.bg +awk '{if(NR>1) {if(\$1!=lastChrom){printf("variableStep chrom=%s\\n",\$1);lastChrom=\$1;}print \$2,\$4}}' ${bw_b.simpleName}.bg > ${bw_b.simpleName}.wig """ } \ No newline at end of file